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Conserved domains on  [gi|28076989|ref|NP_082317|]
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ATP-dependent RNA helicase DDX54 [Mus musculus]

Protein Classification

DDX54/DBP10 family DEAD/DEAH box RNA helicase( domain architecture ID 13028829)

DDX54/DBP10 family DEAD/DEAH box containing ATP-dependent RNA helicase catalyzes the unwinding of RNA, such as fungal ATP-dependent RNA helicase DBP10 that is involved in the biogenesis of 60S ribosomal subunits and is required for the normal formation of 25S and 5.8S rRNAs

CATH:  3.40.50.300
EC:  3.6.4.13
Gene Ontology:  GO:0016887|GO:0003723|GO:0003724|GO:0005524
PubMed:  20206133|21779027|20225155

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 95-299 2.54e-146

DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner with nuclear receptors, and represses their transcriptional activity. DDX54 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


:

Pssm-ID: 350717 [Multi-domain]  Cd Length: 205  Bit Score: 429.80  E-value: 2.54e-146
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  95 GGFQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTGARALILSPT 174
Cdd:cd17959   1 GGFQSMGLSPPLLRAIKKKGYKVPTPIQRKTIPLILDGRDVVAMARTGSGKTAAFLIPMIEKLKAHSPTVGARALILSPT 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 175 RELALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEM 254
Cdd:cd17959  81 RELALQTLKVTKELGKFTDLRTALLVGGDSLEEQFEALASNPDIIIATPGRLLHLLVEMNLKLSSVEYVVFDEADRLFEM 160

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 28076989 255 GFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIR 299
Cdd:cd17959 161 GFAEQLHEILSRLPENRQTLLFSATLPKLLVEFAKAGLNEPVLIR 205
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 310-441 3.43e-43

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


:

Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 153.05  E-value: 3.43e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 310 LKTSFLLVREDTKAAVLLYLLQNVvRPQDQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCS 389
Cdd:cd18787   1 IKQLYVVVEEEEKKLLLLLLLLEK-LKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVR 79

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 28076989 390 TLIVTDLAARGLDIPLLDNVINYSFPAKGKLFLHRVGRVARAGRSGTAYSLV 441
Cdd:cd18787  80 VLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DBP10CT pfam08147
DBP10CT (NUC160) domain; This C terminal domain is found in the Dbp10p subfamily of ...
 706-766 5.84e-23

DBP10CT (NUC160) domain; This C terminal domain is found in the Dbp10p subfamily of hypothetical RNA helicases.


:

Pssm-ID: 462373 [Multi-domain]  Cd Length: 66  Bit Score: 92.74  E-value: 5.84e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 28076989   706 DLMGDEAQNMSRGQQ---QLKWDRKKKRFVGQSGQED--KKKIKTESGRFISSSYKRDLYQKWKQK 766
Cdd:pfam08147   1 DLTGDDGQELNQQKQvqkKMRWDKKKKKFVKRSGNDEdgKKKIRTESGVKIPASYKSGRYDEWKKK 66
 
Name Accession Description Interval E-value
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 95-299 2.54e-146

DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner with nuclear receptors, and represses their transcriptional activity. DDX54 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350717 [Multi-domain]  Cd Length: 205  Bit Score: 429.80  E-value: 2.54e-146
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  95 GGFQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTGARALILSPT 174
Cdd:cd17959   1 GGFQSMGLSPPLLRAIKKKGYKVPTPIQRKTIPLILDGRDVVAMARTGSGKTAAFLIPMIEKLKAHSPTVGARALILSPT 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 175 RELALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEM 254
Cdd:cd17959  81 RELALQTLKVTKELGKFTDLRTALLVGGDSLEEQFEALASNPDIIIATPGRLLHLLVEMNLKLSSVEYVVFDEADRLFEM 160

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 28076989 255 GFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIR 299
Cdd:cd17959 161 GFAEQLHEILSRLPENRQTLLFSATLPKLLVEFAKAGLNEPVLIR 205
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
97-461 5.29e-131

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 398.75  E-value: 5.29e-131
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKArSAQTGARALILSPTRE 176
Cdd:COG0513   4 FADLGLSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQRLDP-SRPRAPQALILAPTRE 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 177 LALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGF 256
Cdd:COG0513  83 LALQVAEELRKLAKYLGLRVATVYGGVSIGRQIRALKRGVDIVVATPGRLLDLIERGALDLSGVETLVLDEADRMLDMGF 162

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 257 AEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIRLDVDSKLNEQLKTSFLLVREDTKAAVLLYLLQnvVRP 336
Cdd:COG0513 163 IEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPENATAETIEQRYYLVDKRDKLELLRRLLR--DED 240

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 337 QDQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNVINYSFPA 416
Cdd:COG0513 241 PERAIVFCNTKRGADRLAEKLQKRGISAAALHGDLSQGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLPE 320

                       330       340       350       360
                ....*....|....*....|....*....|....*....|....*
gi 28076989 417 KGKLFLHRVGRVARAGRSGTAYSLVAPDEVPYLLDLHLFLGRSVT 461
Cdd:COG0513 321 DPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIEKLIGQKIE 365
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
 108-469 5.05e-82

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 270.66  E-value: 5.05e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  108 KGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERL----KARSAQtgARALILSPTRELALQTMK 183
Cdd:PRK11192  14 EALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLldfpRRKSGP--PRILILTPTRELAMQVAD 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  184 FTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEI 263
Cdd:PRK11192  92 QARELAKHTHLDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEENFDCRAVETLILDEADRMLDMGFAQDIETI 171

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  264 IGRLPGGHQTVLFSATLP-KLLVEFARAGLTEPVLIrlDVDSKLNEQLKTSFLLVREDT---KAAVLLYLLQN--VVRpq 337
Cdd:PRK11192 172 AAETRWRKQTLLFSATLEgDAVQDFAERLLNDPVEV--EAEPSRRERKKIHQWYYRADDlehKTALLCHLLKQpeVTR-- 247

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  338 dqTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNVINYSFPAK 417
Cdd:PRK11192 248 --SIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVSHVINFDMPRS 325

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|...
gi 28076989  418 GKLFLHRVGRVARAGRSGTAYSLV-APDevpylldlHLFLGRsvtLARPCEEP 469
Cdd:PRK11192 326 ADTYLHRIGRTGRAGRKGTAISLVeAHD--------HLLLGK---IERYIEEP 367
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 119-287 5.22e-64

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 212.10  E-value: 5.22e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   119 TPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARsaQTGARALILSPTRELALQTMKFTKELGKFTGLKTAL 198
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKL--DNGPQALVLAPTRELAEQIYEELKKLGKGLGLKVAS 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   199 ILGGDKMEDQFAALHeNPDIIIATPGRLVHVAVEMNlKLQSVEYVVFDEADRLFEMGFAEQLQEIIGRLPGGHQTVLFSA 278
Cdd:pfam00270  79 LLGGDSRKEQLEKLK-GPDILVGTPGRLLDLLQERK-LLKNLKLLVLDEAHRLLDMGFGPDLEEILRRLPKKRQILLLSA 156


                  ....*....
gi 28076989   279 TLPKLLVEF 287
Cdd:pfam00270 157 TLPRNLEDL 165
DEXDc smart00487
DEAD-like helicases superfamily;
112-299 4.02e-52

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 180.77  E-value: 4.02e-52
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989    112 KKGYKVPTPIQRKTIPVILDG-KDVVAMARTGSGKTACFLLPMFERLKARSaqtGARALILSPTRELALQTMKFTKELGK 190
Cdd:smart00487   3 KFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKRGK---GGRVLVLVPTRELAEQWAEELKKLGP 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989    191 FTGLKTALILGGDKMEDQFAAL-HENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEIIGRLPG 269
Cdd:smart00487  80 SLGLKVVGLYGGDSKREQLRKLeSGKTDILVTTPGRLLDLLENDKLSLSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPK 159

                          170       180       190
                   ....*....|....*....|....*....|
gi 28076989    270 GHQTVLFSATLPKLLVEFARAGLTEPVLIR 299
Cdd:smart00487 160 NVQLLLLSATPPEEIENLLELFLNDPVFID 189
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 310-441 3.43e-43

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 153.05  E-value: 3.43e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 310 LKTSFLLVREDTKAAVLLYLLQNVvRPQDQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCS 389
Cdd:cd18787   1 IKQLYVVVEEEEKKLLLLLLLLEK-LKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVR 79

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 28076989 390 TLIVTDLAARGLDIPLLDNVINYSFPAKGKLFLHRVGRVARAGRSGTAYSLV 441
Cdd:cd18787  80 VLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DBP10CT pfam08147
DBP10CT (NUC160) domain; This C terminal domain is found in the Dbp10p subfamily of ...
 706-766 5.84e-23

DBP10CT (NUC160) domain; This C terminal domain is found in the Dbp10p subfamily of hypothetical RNA helicases.


Pssm-ID: 462373 [Multi-domain]  Cd Length: 66  Bit Score: 92.74  E-value: 5.84e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 28076989   706 DLMGDEAQNMSRGQQ---QLKWDRKKKRFVGQSGQED--KKKIKTESGRFISSSYKRDLYQKWKQK 766
Cdd:pfam08147   1 DLTGDDGQELNQQKQvqkKMRWDKKKKKFVKRSGNDEdgKKKIRTESGVKIPASYKSGRYDEWKKK 66
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 322-432 1.14e-22

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 93.43  E-value: 1.14e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   322 KAAVLLYLLQNvvRPQDQTVVFVATKHHAEyLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGL 401
Cdd:pfam00271   2 KLEALLELLKK--ERGGKVLIFSQTKKTLE-AELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGL 78

                          90       100       110
                  ....*....|....*....|....*....|.
gi 28076989   402 DIPLLDNVINYSFPAKGKLFLHRVGRVARAG 432
Cdd:pfam00271  79 DLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
HELICc smart00490
helicase superfamily c-terminal domain;
351-432 1.37e-17

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 78.02  E-value: 1.37e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989    351 EYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNVINYSFPAKGKLFLHRVGRVAR 430
Cdd:smart00490   1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGR 80


                   ..
gi 28076989    431 AG 432
Cdd:smart00490  81 AG 82
 
Name Accession Description Interval E-value
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 95-299 2.54e-146

DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner with nuclear receptors, and represses their transcriptional activity. DDX54 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350717 [Multi-domain]  Cd Length: 205  Bit Score: 429.80  E-value: 2.54e-146
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  95 GGFQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTGARALILSPT 174
Cdd:cd17959   1 GGFQSMGLSPPLLRAIKKKGYKVPTPIQRKTIPLILDGRDVVAMARTGSGKTAAFLIPMIEKLKAHSPTVGARALILSPT 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 175 RELALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEM 254
Cdd:cd17959  81 RELALQTLKVTKELGKFTDLRTALLVGGDSLEEQFEALASNPDIIIATPGRLLHLLVEMNLKLSSVEYVVFDEADRLFEM 160

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 28076989 255 GFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIR 299
Cdd:cd17959 161 GFAEQLHEILSRLPENRQTLLFSATLPKLLVEFAKAGLNEPVLIR 205
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
97-461 5.29e-131

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 398.75  E-value: 5.29e-131
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKArSAQTGARALILSPTRE 176
Cdd:COG0513   4 FADLGLSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQRLDP-SRPRAPQALILAPTRE 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 177 LALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGF 256
Cdd:COG0513  83 LALQVAEELRKLAKYLGLRVATVYGGVSIGRQIRALKRGVDIVVATPGRLLDLIERGALDLSGVETLVLDEADRMLDMGF 162

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 257 AEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIRLDVDSKLNEQLKTSFLLVREDTKAAVLLYLLQnvVRP 336
Cdd:COG0513 163 IEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPENATAETIEQRYYLVDKRDKLELLRRLLR--DED 240

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 337 QDQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNVINYSFPA 416
Cdd:COG0513 241 PERAIVFCNTKRGADRLAEKLQKRGISAAALHGDLSQGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLPE 320

                       330       340       350       360
                ....*....|....*....|....*....|....*....|....*
gi 28076989 417 KGKLFLHRVGRVARAGRSGTAYSLVAPDEVPYLLDLHLFLGRSVT 461
Cdd:COG0513 321 DPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIEKLIGQKIE 365
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 108-299 5.47e-85

DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350669 [Multi-domain]  Cd Length: 196  Bit Score: 269.70  E-value: 5.47e-85
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 108 KGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTGA--RALILSPTRELALQTMKFT 185
Cdd:cd00268   3 KALKKLGFEKPTPIQAQAIPLILSGRDVIGQAQTGSGKTLAFLLPILEKLLPEPKKKGRgpQALVLAPTRELAMQIAEVA 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 186 KELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEIIG 265
Cdd:cd00268  83 RKLGKGTGLKVAAIYGGAPIKKQIEALKKGPDIVVGTPGRLLDLIERGKLDLSNVKYLVLDEADRMLDMGFEEDVEKILS 162

                       170       180       190
                ....*....|....*....|....*....|....
gi 28076989 266 RLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIR 299
Cdd:cd00268 163 ALPKDRQTLLFSATLPEEVKELAKKFLKNPVRIE 196
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
 108-469 5.05e-82

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 270.66  E-value: 5.05e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  108 KGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERL----KARSAQtgARALILSPTRELALQTMK 183
Cdd:PRK11192  14 EALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLldfpRRKSGP--PRILILTPTRELAMQVAD 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  184 FTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEI 263
Cdd:PRK11192  92 QARELAKHTHLDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEENFDCRAVETLILDEADRMLDMGFAQDIETI 171

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  264 IGRLPGGHQTVLFSATLP-KLLVEFARAGLTEPVLIrlDVDSKLNEQLKTSFLLVREDT---KAAVLLYLLQN--VVRpq 337
Cdd:PRK11192 172 AAETRWRKQTLLFSATLEgDAVQDFAERLLNDPVEV--EAEPSRRERKKIHQWYYRADDlehKTALLCHLLKQpeVTR-- 247

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  338 dqTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNVINYSFPAK 417
Cdd:PRK11192 248 --SIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVSHVINFDMPRS 325

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|...
gi 28076989  418 GKLFLHRVGRVARAGRSGTAYSLV-APDevpylldlHLFLGRsvtLARPCEEP 469
Cdd:PRK11192 326 ADTYLHRIGRTGRAGRKGTAISLVeAHD--------HLLLGK---IERYIEEP 367
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 97-445 3.83e-74

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 250.10  E-value: 3.83e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTgaRALILSPTRE 176
Cdd:PRK11776   6 FSTLPLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRV--QALVLCPTRE 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  177 LALQTMKFTKELGKFT-GLKTALILGGDKMEDQFAALHENPDIIIATPGRLV-HVAVEmNLKLQSVEYVVFDEADRLFEM 254
Cdd:PRK11776  84 LADQVAKEIRRLARFIpNIKVLTLCGGVPMGPQIDSLEHGAHIIVGTPGRILdHLRKG-TLDLDALNTLVLDEADRMLDM 162

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  255 GFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIRLDVDSKLN--EQLktsFLLVREDTKAAVLLYLLQN 332
Cdd:PRK11776 163 GFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTHDLPaiEQR---FYEVSPDERLPALQRLLLH 239

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  333 vVRPQdQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNVINY 412
Cdd:PRK11776 240 -HQPE-SCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGLDIKALEAVINY 317

                        330       340       350
                 ....*....|....*....|....*....|...
gi 28076989  413 SFPAKGKLFLHRVGRVARAGRSGTAYSLVAPDE 445
Cdd:PRK11776 318 ELARDPEVHVHRIGRTGRAGSKGLALSLVAPEE 350
PRK10590 PRK10590
ATP-dependent RNA helicase RhlE; Provisional
 97-469 4.68e-73

ATP-dependent RNA helicase RhlE; Provisional


Pssm-ID: 236722 [Multi-domain]  Cd Length: 456  Bit Score: 247.03  E-value: 4.68e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTGAR----ALILS 172
Cdd:PRK10590   3 FDSLGLSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRrpvrALILT 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  173 PTRELALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLF 252
Cdd:PRK10590  83 PTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMKLRGGVDVLVATPGRLLDLEHQNAVKLDQVEILVLDEADRML 162

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  253 EMGFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIRLDVDSKLNEQLKTSFLLVREDTKAAVLLYLLQN 332
Cdd:PRK10590 163 DMGFIHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQVTQHVHFVDKKRKRELLSQMIGK 242

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  333 vvRPQDQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNVINY 412
Cdd:PRK10590 243 --GNWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEELPHVVNY 320

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 28076989  413 SFPAKGKLFLHRVGRVARAGRSGTAYSLVAPDEVPYLLDLHLFLGRSVT-LARPCEEP 469
Cdd:PRK10590 321 ELPNVPEDYVHRIGRTGRAAATGEALSLVCVDEHKLLRDIEKLLKKEIPrIAIPGYEP 378
DEADc_DDX27 cd17947
DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ...
 106-299 3.16e-67

DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ribosomal subunits protein 1 homolog, and probable ATP-dependent RNA helicase DDX27) is involved in the processing of 5.8S and 28S ribosomal RNAs. More specifically, the encoded protein localizes to the nucleolus, where it interacts with the PeBoW complex to ensure proper 3' end formation of 47S rRNA. DDX27 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350705 [Multi-domain]  Cd Length: 196  Bit Score: 222.13  E-value: 3.16e-67
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 106 VFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTGA-RALILSPTRELALQTMKF 184
Cdd:cd17947   1 LLRALSSLGFTKPTPIQAAAIPLALLGKDICASAVTGSGKTAAFLLPILERLLYRPKKKAAtRVLVLVPTRELAMQCFSV 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 185 TKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLV-HVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEI 263
Cdd:cd17947  81 LQQLAQFTDITFALAVGGLSLKAQEAALRARPDIVIATPGRLIdHLRNSPSFDLDSIEILVLDEADRMLEEGFADELKEI 160

                       170       180       190
                ....*....|....*....|....*....|....*.
gi 28076989 264 IGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIR 299
Cdd:cd17947 161 LRLCPRTRQTMLFSATMTDEVKDLAKLSLNKPVRVF 196
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 119-287 5.22e-64

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 212.10  E-value: 5.22e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   119 TPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARsaQTGARALILSPTRELALQTMKFTKELGKFTGLKTAL 198
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKL--DNGPQALVLAPTRELAEQIYEELKKLGKGLGLKVAS 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   199 ILGGDKMEDQFAALHeNPDIIIATPGRLVHVAVEMNlKLQSVEYVVFDEADRLFEMGFAEQLQEIIGRLPGGHQTVLFSA 278
Cdd:pfam00270  79 LLGGDSRKEQLEKLK-GPDILVGTPGRLLDLLQERK-LLKNLKLLVLDEAHRLLDMGFGPDLEEILRRLPKKRQILLLSA 156


                  ....*....
gi 28076989   279 TLPKLLVEF 287
Cdd:pfam00270 157 TLPRNLEDL 165
PTZ00110 PTZ00110
helicase; Provisional
 103-445 5.05e-63

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 222.34  E-value: 5.05e-63
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  103 SYP--VFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSA---QTGARALILSPTREL 177
Cdd:PTZ00110 136 SFPdyILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLlryGDGPIVLVLAPTREL 215

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  178 ALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFA 257
Cdd:PTZ00110 216 AEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYALRRGVEILIACPGRLIDFLESNVTNLRRVTYLVLDEADRMLDMGFE 295

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  258 EQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTE-PVLIRL-DVDSKLNEQLKTSFLLVREDTKAAVLLYLLQNVVR 335
Cdd:PTZ00110 296 PQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEePVHVNVgSLDLTACHNIKQEVFVVEEHEKRGKLKMLLQRIMR 375

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  336 PQDQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNVINYSFP 415
Cdd:PTZ00110 376 DGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDVASRGLDVKDVKYVINFDFP 455

                        330       340       350
                 ....*....|....*....|....*....|
gi 28076989  416 AKGKLFLHRVGRVARAGRSGTAYSLVAPDE 445
Cdd:PTZ00110 456 NQIEDYVHRIGRTGRAGAKGASYTFLTPDK 485
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
 97-440 1.70e-62

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 217.15  E-value: 1.70e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTG-----ARALIL 171
Cdd:PRK04837  10 FSDFALHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDrkvnqPRALIM 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  172 SPTRELALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRL 251
Cdd:PRK04837  90 APTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRM 169

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  252 FEMGFAEQLQEIIGRLPGGHQ--TVLFSATLPKLLVEFARAGLTEPVLIRLDVDSKLNEQLKTSFLLVREDTKAAVLLYL 329
Cdd:PRK04837 170 FDLGFIKDIRWLFRRMPPANQrlNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTGHRIKEELFYPSNEEKMRLLQTL 249

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  330 LQNvvRPQDQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNV 409
Cdd:PRK04837 250 IEE--EWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRGDLDILVATDVAARGLHIPAVTHV 327

                        330       340       350
                 ....*....|....*....|....*....|.
gi 28076989  410 INYSFPAKGKLFLHRVGRVARAGRSGTAYSL 440
Cdd:PRK04837 328 FNYDLPDDCEDYVHRIGRTGRAGASGHSISL 358
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 96-468 2.07e-60

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 213.24  E-value: 2.07e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   96 GFQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTG-----ARALI 170
Cdd:PRK01297  88 RFHDFNLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKErymgePRALI 167

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  171 LSPTRELALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHEN-PDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEAD 249
Cdd:PRK01297 168 IAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQLKQLEARfCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEAD 247

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  250 RLFEMGFAEQLQEIIGRLP--GGHQTVLFSATLPKLLVEFARAGLTEPVLIRLDVDSKLNEQLKTSFLLVREDTKAAvll 327
Cdd:PRK01297 248 RMLDMGFIPQVRQIIRQTPrkEERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQHVYAVAGSDKYK--- 324

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  328 yLLQNVVR--PQDQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPL 405
Cdd:PRK01297 325 -LLYNLVTqnPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDG 403

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28076989  406 LDNVINYSFPAKGKLFLHRVGRVARAGRSGTAYSLVAPDEVPYLLDLHLFLGRSVTLARPCEE 468
Cdd:PRK01297 404 ISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISFAGEDDAFQLPEIEELLGRKISCEMPPAE 466
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 97-298 4.28e-59

DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can shuttle between the nucleus and the cytoplasm, and has an RNA-independent ATPase activity. DX47 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350712 [Multi-domain]  Cd Length: 203  Bit Score: 200.24  E-value: 4.28e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKArsAQTGARALILSPTRE 176
Cdd:cd17954   2 FKELGVCEELCEACEKLGWKKPTKIQEEAIPVALQGRDIIGLAETGSGKTAAFALPILQALLE--NPQRFFALVLAPTRE 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 177 LALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLV-HVAVEMNLKLQSVEYVVFDEADRLFEMG 255
Cdd:cd17954  80 LAQQISEQFEALGSSIGLKSAVLVGGMDMMAQAIALAKKPHVIVATPGRLVdHLENTKGFSLKSLKFLVMDEADRLLNMD 159

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 28076989 256 FAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd17954 160 FEPEIDKILKVIPRERTTYLFSATMTTKVAKLQRASLKNPVKI 202
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
 97-441 4.33e-59

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 213.17  E-value: 4.33e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKA--RSAQTgaraLILSPT 174
Cdd:PRK11634   8 FADLGLKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPelKAPQI----LVLAPT 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  175 RELALQTMKFTKELGK-FTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFE 253
Cdd:PRK11634  84 RELAVQVAEAMTDFSKhMRGVNVVALYGGQRYDVQLRALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLR 163

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  254 MGFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIRLDVDSKLNEQLKTSFLLVREDTKAAVLLYLLQnv 333
Cdd:PRK11634 164 MGFIEDVETIMAQIPEGHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQSYWTVWGMRKNEALVRFLE-- 241

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  334 VRPQDQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNVINYS 413
Cdd:PRK11634 242 AEDFDAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVERISLVVNYD 321

                        330       340
                 ....*....|....*....|....*...
gi 28076989  414 FPAKGKLFLHRVGRVARAGRSGTAYSLV 441
Cdd:PRK11634 322 IPMDSESYVHRIGRTGRAGRAGRALLFV 349
DEADc_DDX52 cd17957
DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ...
 110-298 1.49e-58

DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ubiquitously expressed in testis, endometrium, and other tissues in humans. DDX52 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350715 [Multi-domain]  Cd Length: 198  Bit Score: 198.58  E-value: 1.49e-58
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 110 IMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTGARALILSPTRELALQTMKFTKELG 189
Cdd:cd17957   5 LEESGYREPTPIQMQAIPILLHGRDLLACAPTGSGKTLAFLIPILQKLGKPRKKKGLRALILAPTRELASQIYRELLKLS 84

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 190 KFTGLKTALILGGD-KMEDQFAALHENPDIIIATPGRLVHvAVEMNLK-LQSVEYVVFDEADRLFEMGFAEQLQEIIGRL 267
Cdd:cd17957  85 KGTGLRIVLLSKSLeAKAKDGPKSITKYDILVSTPLRLVF-LLKQGPIdLSSVEYLVLDEADKLFEPGFREQTDEILAAC 163

                       170       180       190
                ....*....|....*....|....*....|..
gi 28076989 268 PGGH-QTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd17957 164 TNPNlQRSLFSATIPSEVEELARSVMKDPIRI 195
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
 97-449 8.22e-56

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 202.49  E-value: 8.22e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTG-----ARALIL 171
Cdd:PRK04537  11 FSSFDLHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADrkpedPRALIL 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  172 SPTRELALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLV-HVAVEMNLKLQSVEYVVFDEADR 250
Cdd:PRK04537  91 APTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQRELLQQGVDVIIATPGRLIdYVKQHKVVSLHACEICVLDEADR 170

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  251 LFEMGFAEQLQEIIGRLP--GGHQTVLFSATLPKLLVEFARAGLTEPVLIRLDVDSKLNEQLKTSFLLVREDTKAAVLLY 328
Cdd:PRK04537 171 MFDLGFIKDIRFLLRRMPerGTRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAARVRQRIYFPADEEKQTLLLG 250

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  329 LLQnvvRPQD-QTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLD 407
Cdd:PRK04537 251 LLS---RSEGaRTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAARGLHIDGVK 327

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
gi 28076989  408 NVINYSFPAKGKLFLHRVGRVARAGRSGTA-------YSLVAPDEVPYL 449
Cdd:PRK04537 328 YVYNYDLPFDAEDYVHRIGRTARLGEEGDAisfacerYAMSLPDIEAYI 376
DEADc_DDX46 cd17953
DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) ...
 101-298 1.52e-55

DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) is a component of the 17S U2 snRNP complex. It plays an important role in pre-mRNA splicing and has a role in antiviral innate immunity. DDX46 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350711 [Multi-domain]  Cd Length: 222  Bit Score: 191.05  E-value: 1.52e-55
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 101 GLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKAR---SAQTGARALILSPTREL 177
Cdd:cd17953  18 GLSEKVLDLIKKLGYEKPTPIQAQALPAIMSGRDVIGIAKTGSGKTLAFLLPMFRHIKDQrpvKPGEGPIGLIMAPTREL 97

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 178 ALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLK---LQSVEYVVFDEADRLFEM 254
Cdd:cd17953  98 ALQIYVECKKFSKALGLRVVCVYGGSGISEQIAELKRGAEIVVCTPGRMIDILTANNGRvtnLRRVTYVVLDEADRMFDM 177

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....
gi 28076989 255 GFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd17953 178 GFEPQIMKIVNNIRPDRQTVLFSATFPRKVEALARKVLHKPIEI 221
DEADc_DDX49 cd17955
DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the ...
 97-298 6.93e-55

DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350713 [Multi-domain]  Cd Length: 204  Bit Score: 188.59  E-value: 6.93e-55
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLkaRSAQTGARALILSPTRE 176
Cdd:cd17955   1 FEDLGLSSWLVKQCASLGIKEPTPIQKLCIPEILAGRDVIGGAKTGSGKTAAFALPILQRL--SEDPYGIFALVLTPTRE 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 177 LALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLV-HV--AVEMNLKLQSVEYVVFDEADRLFE 253
Cdd:cd17955  79 LAYQIAEQFRALGAPLGLRCCVIVGGMDMVKQALELSKRPHIVVATPGRLAdHLrsSDDTTKVLSRVKFLVLDEADRLLT 158

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 28076989 254 MGFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd17955 159 GSFEDDLATILSALPPKRQTLLFSATLTDALKALKELFGNKPFFW 203
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 114-299 7.08e-55

DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350718 [Multi-domain]  Cd Length: 202  Bit Score: 188.55  E-value: 7.08e-55
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 114 GYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQ---TGARALILSPTRELALQTMKFTKELGK 190
Cdd:cd17960   9 GFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLEILLKRKANlkkGQVGALIISPTRELATQIYEVLQSFLE 88

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 191 FTG--LKTALILGGDKMEDQFAALHEN-PDIIIATPGRL----VHVAVEMNLKlqSVEYVVFDEADRLFEMGFAEQLQEI 263
Cdd:cd17960  89 HHLpkLKCQLLIGGTNVEEDVKKFKRNgPNILVGTPGRLeellSRKADKVKVK--SLEVLVLDEADRLLDLGFEADLNRI 166

                       170       180       190
                ....*....|....*....|....*....|....*.
gi 28076989 264 IGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIR 299
Cdd:cd17960 167 LSKLPKQRRTGLFSATQTDAVEELIKAGLRNPVRVV 202
PTZ00424 PTZ00424
helicase 45; Provisional
 97-452 2.17e-54

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 193.89  E-value: 2.17e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERL--KARSAQtgarALILSPT 174
Cdd:PTZ00424  30 FDALKLNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIdyDLNACQ----ALILAPT 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  175 RELALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEM 254
Cdd:PTZ00424 106 RELAQQIQKVVLALGDYLKVRCHACVGGTVVRDDINKLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADEMLSR 185

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  255 GFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIRLDVDSKLNEQLKTSFLLV-REDTKAAVLLYLLQNV 333
Cdd:PTZ00424 186 GFKGQIYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKDELTLEGIRQFYVAVeKEEWKFDTLCDLYETL 265

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  334 VrpQDQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNVINYS 413
Cdd:PTZ00424 266 T--ITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYD 343

                        330       340       350
                 ....*....|....*....|....*....|....*....
gi 28076989  414 FPAKGKLFLHRVGRVARAGRSGTAYSLVAPDEVPYLLDL 452
Cdd:PTZ00424 344 LPASPENYIHRIGRSGRFGRKGVAINFVTPDDIEQLKEI 382
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
 108-280 1.52e-53

DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of infectious West Nile virus particles. New research suggests that DDX56 relocalizes to the site of virus assembly during WNV infection and that its interaction with WNV capsid in the cytoplasm may occur transiently during virion morphogenesis. DDX56 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350719 [Multi-domain]  Cd Length: 206  Bit Score: 185.09  E-value: 1.52e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 108 KGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFE---RLKARSAQTGA-RALILSPTRELALQTMK 183
Cdd:cd17961   7 KAIAKLGWEKPTLIQSKAIPLALEGKDILARARTGSGKTAAYALPIIQkilKAKAESGEEQGtRALILVPTRELAQQVSK 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 184 FTKELGKFTG--LKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQS-VEYVVFDEADRLFEMGFAEQL 260
Cdd:cd17961  87 VLEQLTAYCRkdVRVVNLSASSSDSVQRALLAEKPDIVVSTPARLLSHLESGSLLLLStLKYLVIDEADLVLSYGYEEDL 166

                       170       180
                ....*....|....*....|
gi 28076989 261 QEIIGRLPGGHQTVLFSATL 280
Cdd:cd17961 167 KSLLSYLPKNYQTFLMSATL 186
DEADc_DDX42 cd17952
DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor ...
 110-298 1.69e-53

DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor 3B-Associated 125 kDa Protein, RHELP, or RNAHP) is an NTPase with a preference for ATP, the hydrolysis of which is enhanced by various RNA substrates. It acts as a non-processive RNA helicase with protein displacement and RNA annealing activities. DDX42 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350710 [Multi-domain]  Cd Length: 197  Bit Score: 184.54  E-value: 1.69e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 110 IMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERL---KARSAQTGARALILSPTRELALQTMKFTK 186
Cdd:cd17952   5 IRKQEYEQPTPIQAQALPVALSGRDMIGIAKTGSGKTAAFIWPMLVHImdqRELEKGEGPIAVIVAPTRELAQQIYLEAK 84

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 187 ELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEIIGR 266
Cdd:cd17952  85 KFGKAYNLRVVAVYGGGSKWEQAKALQEGAEIVVATPGRLIDMVKKKATNLQRVTYLVLDEADRMFDMGFEYQVRSIVGH 164

                       170       180       190
                ....*....|....*....|....*....|..
gi 28076989 267 LPGGHQTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd17952 165 VRPDRQTLLFSATFKKKIEQLARDILSDPIRV 196
DEADc_DDX10 cd17941
DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin ...
 108-298 6.72e-53

DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin gene, NUP98, by inversion 11 (p15q22) chromosome translocation is found in the patients with de novo or therapy-related myeloid malignancies. Diseases associated with DDX10 (also known as DDX10-NUP98 Fusion Protein Type 2) include myelodysplastic syndrome and leukemia, acute myeloid. DDX10 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350699 [Multi-domain]  Cd Length: 198  Bit Score: 182.87  E-value: 6.72e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 108 KGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERL--KARSAQTGARALILSPTRELALQTMKFT 185
Cdd:cd17941   3 KGLKEAGFIKMTEIQRDSIPHALQGRDILGAAKTGSGKTLAFLVPLLEKLyrERWTPEDGLGALIISPTRELAMQIFEVL 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 186 KELGKFTGLKTALILGGDKMEDQFAALHENpDIIIATPGRLV-HVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEII 264
Cdd:cd17941  83 RKVGKYHSFSAGLIIGGKDVKEEKERINRM-NILVCTPGRLLqHMDETPGFDTSNLQMLVLDEADRILDMGFKETLDAIV 161

                       170       180       190
                ....*....|....*....|....*....|....
gi 28076989 265 GRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd17941 162 ENLPKSRQTLLFSATQTKSVKDLARLSLKNPEYI 195
DEADc_DDX23 cd17945
DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and ...
 106-298 1.13e-52

DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and PRP28 homolog) is involved in pre-mRNA splicing and its phosphorylated form (by SRPK2) is required for spliceosomal B complex formation. Diseases associated with DDX23 include distal hereditary motor neuropathy, type II. DDX23 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350703 [Multi-domain]  Cd Length: 220  Bit Score: 182.90  E-value: 1.13e-52
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 106 VFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFER------LKARSAQTGARALILSPTRELAL 179
Cdd:cd17945   1 LLRVIRKLGYKEPTPIQRQAIPIGLQNRDIIGIAETGSGKTAAFLIPLLVYisrlppLDEETKDDGPYALILAPTRELAQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 180 QTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQ 259
Cdd:cd17945  81 QIEEETQKFAKPLGIRVVSIVGGHSIEEQAFSLRNGCEILIATPGRLLDCLERRLLVLNQCTYVVLDEADRMIDMGFEPQ 160

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 28076989 260 LQEIIGRLP-----------------GGH---QTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd17945 161 VTKILDAMPvsnkkpdteeaeklaasGKHryrQTMMFTATMPPAVEKIAKGYLRRPVVV 219
DEXDc smart00487
DEAD-like helicases superfamily;
112-299 4.02e-52

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 180.77  E-value: 4.02e-52
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989    112 KKGYKVPTPIQRKTIPVILDG-KDVVAMARTGSGKTACFLLPMFERLKARSaqtGARALILSPTRELALQTMKFTKELGK 190
Cdd:smart00487   3 KFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKRGK---GGRVLVLVPTRELAEQWAEELKKLGP 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989    191 FTGLKTALILGGDKMEDQFAAL-HENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEIIGRLPG 269
Cdd:smart00487  80 SLGLKVVGLYGGDSKREQLRKLeSGKTDILVTTPGRLLDLLENDKLSLSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPK 159

                          170       180       190
                   ....*....|....*....|....*....|
gi 28076989    270 GHQTVLFSATLPKLLVEFARAGLTEPVLIR 299
Cdd:smart00487 160 NVQLLLLSATPPEEIENLLELFLNDPVFID 189
DEADc_DDX3_DDX4 cd17967
DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes ...
 97-282 1.14e-51

DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes Drosophila melanogaster Vasa, which is essential for development. DEAD box protein 3 (DDX3) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. DEAD box protein 4 (DDX4, also known as VASA homolog) is an ATP-dependent RNA helicase required during spermatogenesis and is essential for the germline integrity. DDX3 and DDX4 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350725 [Multi-domain]  Cd Length: 221  Bit Score: 180.38  E-value: 1.14e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERL--------KARSAQTGARA 168
Cdd:cd17967   2 FEEAGLRELLLENIKRAGYTKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPIISKLledgppsvGRGRRKAYPSA 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 169 LILSPTRELALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVaVEMN-LKLQSVEYVVFDE 247
Cdd:cd17967  82 LILAPTRELAIQIYEEARKFSYRSGVRSVVVYGGADVVHQQLQLLRGCDILVATPGRLVDF-IERGrISLSSIKFLVLDE 160

                       170       180       190
                ....*....|....*....|....*....|....*....
gi 28076989 248 ADRLFEMGFAEQLQEIIGR----LPGGHQTVLFSATLPK 282
Cdd:cd17967 161 ADRMLDMGFEPQIRKIVEHpdmpPKGERQTLMFSATFPR 199
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
 97-441 6.94e-51

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 187.30  E-value: 6.94e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFE-----RLKARSAQTGARALIL 171
Cdd:PLN00206 123 FSSCGLPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISrcctiRSGHPSEQRNPLAMVL 202

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  172 SPTRELALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRL 251
Cdd:PLN00206 203 TPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMPQQLYRIQQGVELIVGTPGRLIDLLSKHDIELDNVSVLVLDEVDCM 282

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  252 FEMGFAEQLQEIIGRLPGGhQTVLFSATLPKLLVEFARAGLTEPVLIRLDVDSKLNEQLKTSFLLVREDTKAAVLLYLLQ 331
Cdd:PLN00206 283 LERGFRDQVMQIFQALSQP-QVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVETKQKKQKLFDILK 361

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  332 NVVRPQDQTVVFVATKHHAEYLTELL-MGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNVI 410
Cdd:PLN00206 362 SKQHFKPPAVVFVSSRLGADLLANAItVVTGLKALSIHGEKSMKERREVMKSFLVGEVPVIVATGVLGRGVDLLRVRQVI 441

                        330       340       350
                 ....*....|....*....|....*....|.
gi 28076989  411 NYSFPAKGKLFLHRVGRVARAGRSGTAYSLV 441
Cdd:PLN00206 442 IFDMPNTIKEYIHQIGRASRMGEKGTAIVFV 472
DEADc_DDX6 cd17940
DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or ...
 97-298 1.18e-50

DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or p54) participates in mRNA regulation mediated by miRNA-mediated silencing. It also plays a role in global and transcript-specific messenger RNA (mRNA) storage, translational repression, and decay. It is a member of the DEAD-box helicase family, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350698 [Multi-domain]  Cd Length: 201  Bit Score: 176.72  E-value: 1.18e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKarSAQTGARALILSPTRE 176
Cdd:cd17940   1 FEDYGLKRELLMGIFEKGFEKPSPIQEESIPIALSGRDILARAKNGTGKTGAYLIPILEKID--PKKDVIQALILVPTRE 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 177 LALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGF 256
Cdd:cd17940  79 LALQTSQVCKELGKHMGVKVMVTTGGTSLRDDIMRLYQTVHVLVGTPGRILDLAKKGVADLSHCKTLVLDEADKLLSQDF 158

                       170       180       190       200
                ....*....|....*....|....*....|....*....|..
gi 28076989 257 AEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd17940 159 QPIIEKILNFLPKERQILLFSATFPLTVKNFMDRHMHNPYEI 200
DEADc_MSS116 cd17964
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for ...
 102-292 1.38e-48

DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for mitochondrial group I and II intron splicing, translational activation, and RNA end processing. Mss116 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350722 [Multi-domain]  Cd Length: 211  Bit Score: 171.23  E-value: 1.38e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 102 LSYPVFKGIMKKGYKVPTPIQRKTIPVIL-DGKDVVAMARTGSGKTACFLLPMFERL---KARSAQTGARALILSPTREL 177
Cdd:cd17964   1 LDPSLLKALTRMGFETMTPVQQKTLKPILsTGDDVLARAKTGTGKTLAFLLPAIQSLlntKPAGRRSGVSALIISPTREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 178 ALQTMK-FTKELGKFTGLKTALILGGDKMEDQFAALH-ENPDIIIATPGRLV-HVAVEMNLK-LQSVEYVVFDEADRLFE 253
Cdd:cd17964  81 ALQIAAeAKKLLQGLRKLRVQSAVGGTSRRAELNRLRrGRPDILVATPGRLIdHLENPGVAKaFTDLDYLVLDEADRLLD 160

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 28076989 254 MGFAEQLQEIIGRLP----GGHQTVLFSATLPKLLVEFARAGL 292
Cdd:cd17964 161 MGFRPDLEQILRHLPeknaDPRQTLLFSATVPDEVQQIARLTL 203
DEADc_EIF4A cd17939
DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation ...
 100-298 1.79e-48

DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation factor-4A (eIF4A) family consists of 3 proteins EIF4A1, EIF4A2, and EIF4A3. These factors are required for the binding of mRNA to 40S ribosomal subunits. In addition these proteins are helicases that function to unwind double-stranded RNA. EIF4A proteins are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350697 [Multi-domain]  Cd Length: 199  Bit Score: 170.58  E-value: 1.79e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 100 MGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTgaRALILSPTRELAL 179
Cdd:cd17939   2 MGLSEDLLRGIYAYGFEKPSAIQQRAIVPIIKGRDVIAQAQSGTGKTATFSIGALQRIDTTVRET--QALVLAPTRELAQ 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 180 QTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQ 259
Cdd:cd17939  80 QIQKVVKALGDYMGVKVHACIGGTSVREDRRKLQYGPHIVVGTPGRVFDMLQRRSLRTDKIKMFVLDEADEMLSRGFKDQ 159

                       170       180       190
                ....*....|....*....|....*....|....*....
gi 28076989 260 LQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd17939 160 IYDIFQFLPPETQVVLFSATMPHEVLEVTKKFMRDPVRI 198
DEADc_DDX59 cd17962
DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer ...
 110-298 6.85e-48

DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer development by promoting DNA replication. DDX59 knockdown mice showed reduced cell proliferation, anchorage-independent cell growth, and reduction of tumor formation. Recent work shows that EGFR and Ras regulate DDX59 during lung cancer development. Diseases associated with DDX59 (also called zinc finger HIT domain-containing protein 5) include orofaciodigital syndrome V and orofaciodigital syndrome. DDX59 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350720 [Multi-domain]  Cd Length: 193  Bit Score: 168.50  E-value: 6.85e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 110 IMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERlkARSAQTGARALILSPTRELALQTMKFTKELG 189
Cdd:cd17962   5 LKKAGYEVPTPIQMQMIPVGLLGRDILASADTGSGKTAAFLLPVIIR--CLTEHRNPSALILTPTRELAVQIEDQAKELM 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 190 K-FTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEIIGRLP 268
Cdd:cd17962  83 KgLPPMKTALLVGGLPLPPQLYRLQQGVKVIIATPGRLLDILKQSSVELDNIKIVVVDEADTMLKMGFQQQVLDILENIS 162

                       170       180       190
                ....*....|....*....|....*....|
gi 28076989 269 GGHQTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd17962 163 HDHQTILVSATIPRGIEQLAGQLLQNPVRI 192
DEADc_DDX24 cd17946
DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box ...
 106-280 2.46e-47

DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box protein, which shows little similarity to any of the other known human DEAD box proteins, but shows a high similarity to mouse Ddx24 at the amino acid level. MDM2 mediates nonproteolytic polyubiquitylation of the DEAD-Box RNA helicase DDX24. DDX24 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.


Pssm-ID: 350704 [Multi-domain]  Cd Length: 235  Bit Score: 168.57  E-value: 2.46e-47
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 106 VFKGIMKKGYKVPTPIQRKTIPV-ILDGKDVVAMARTGSGKTACFLLPMFERL-------KARSAQTGARALILSPTREL 177
Cdd:cd17946   1 ILRALADLGFSEPTPIQALALPAaIRDGKDVIGAAETGSGKTLAFGIPILERLlsqkssnGVGGKQKPLRALILTPTREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 178 ALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNL---KLQSVEYVVFDEADRLFEM 254
Cdd:cd17946  81 AVQVKDHLKAIAKYTNIKIASIVGGLAVQKQERLLKKRPEIVVATPGRLWELIQEGNEhlaNLKSLRFLVLDEADRMLEK 160

                       170       180       190
                ....*....|....*....|....*....|...
gi 28076989 255 GFAEQLQEIIGRLPGGH-------QTVLFSATL 280
Cdd:cd17946 161 GHFAELEKILELLNKDRagkkrkrQTFVFSATL 193
DEADc_DDX41 cd17951
DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts ...
 106-298 4.85e-46

DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts with several spliceosomal proteins and may recognize the bacterial second messengers cyclic di-GMP and cyclic di-AMP, resulting in the induction of genes involved in the innate immune response. Diseases associated with DDX41 include "myeloproliferative/lymphoproliferative neoplasms, familial" and "Ddx41-related susceptibility to familial myeloproliferative/lymphoproliferative neoplasms". DDX41 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350709 [Multi-domain]  Cd Length: 206  Bit Score: 164.05  E-value: 4.85e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 106 VFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMF------ERLKARSAQTGARALILSPTRELAL 179
Cdd:cd17951   1 ILKGLKKKGIKKPTPIQMQGLPTILSGRDMIGIAFTGSGKTLVFTLPLImfaleqEKKLPFIKGEGPYGLIVCPSRELAR 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 180 QTMK----FTKEL--GKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFE 253
Cdd:cd17951  81 QTHEvieyYCKALqeGGYPQLRCLLCIGGMSVKEQLEVIRKGVHIVVATPGRLMDMLNKKKINLDICRYLCLDEADRMID 160

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 28076989 254 MGFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd17951 161 MGFEEDIRTIFSYFKGQRQTLLFSATMPKKIQNFAKSALVKPVTV 205
DEADc_DDX5_DDX17 cd17966
DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are ...
 106-298 4.38e-45

DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350724 [Multi-domain]  Cd Length: 197  Bit Score: 161.00  E-value: 4.38e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 106 VFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKA---RSAQTGARALILSPTRELALQTM 182
Cdd:cd17966   1 VMDELKRQGFTEPTAIQAQGWPMALSGRDMVGIAQTGSGKTLAFLLPAIVHINAqppLERGDGPIVLVLAPTRELAQQIQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 183 KFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQE 262
Cdd:cd17966  81 QEANKFGGSSRLRNTCVYGGAPKGPQIRDLRRGVEICIATPGRLIDFLDQGKTNLRRVTYLVLDEADRMLDMGFEPQIRK 160

                       170       180       190
                ....*....|....*....|....*....|....*.
gi 28076989 263 IIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd17966 161 IVDQIRPDRQTLMWSATWPKEVRRLAEDFLKDYIQV 196
DEADc_DDX31 cd17949
DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) ...
 114-299 1.71e-43

DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) plays a role in ribosome biogenesis and TP53/p53 regulation through its interaction with NPM1. DDX31 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350707 [Multi-domain]  Cd Length: 214  Bit Score: 156.98  E-value: 1.71e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 114 GYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKA------RSaqTGARALILSPTRELALQTMK-FTK 186
Cdd:cd17949  10 GIEKPTAIQKLAIPVLLQGRDVLVRSQTGSGKTLAYLLPIIQRLLSleprvdRS--DGTLALVLVPTRELALQIYEvLEK 87

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 187 ELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLV-HVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEII- 264
Cdd:cd17949  88 LLKPFHWIVPGYLIGGEKRKSEKARLRKGVNILIATPGRLLdHLKNTQSFDVSNLRWLVLDEADRLLDMGFEKDITKILe 167

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*..
gi 28076989 265 ------------GRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIR 299
Cdd:cd17949 168 llddkrskaggeKSKPSRRQTVLVSATLTDGVKRLAGLSLKDPVYID 214
DEADc_DDX43_DDX53 cd17958
DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis ...
 106-298 2.02e-43

DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis antigen 13 or helical antigen) displays tumor-specific expression. Diseases associated with DDX43 include rheumatoid lung disease. DDX53 is also called cancer/testis antigen 26 or DEAD-Box Protein CAGE. Both DDX46 and DDX53 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350716 [Multi-domain]  Cd Length: 197  Bit Score: 156.09  E-value: 2.02e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 106 VFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTGAR----ALILSPTRELALQT 181
Cdd:cd17958   1 IMKEIKKQGFEKPSPIQSQAWPIILQGIDLIGVAQTGTGKTLAYLLPGFIHLDLQPIPREQRngpgVLVLTPTRELALQI 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 182 -MKFTKElgKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQL 260
Cdd:cd17958  81 eAECSKY--SYKGLKSVCVYGGGNRNEQIEDLSKGVDIIIATPGRLNDLQMNNVINLKSITYLVLDEADRMLDMGFEPQI 158

                       170       180       190
                ....*....|....*....|....*....|....*...
gi 28076989 261 QEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd17958 159 RKILLDIRPDRQTIMTSATWPDGVRRLAQSYLKDPMIV 196
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 310-441 3.43e-43

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 153.05  E-value: 3.43e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 310 LKTSFLLVREDTKAAVLLYLLQNVvRPQDQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCS 389
Cdd:cd18787   1 IKQLYVVVEEEEKKLLLLLLLLEK-LKPGKAIIFVNTKKRVDRLAELLEELGIKVAALHGDLSQEERERALKKFRSGKVR 79

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 28076989 390 TLIVTDLAARGLDIPLLDNVINYSFPAKGKLFLHRVGRVARAGRSGTAYSLV 441
Cdd:cd18787  80 VLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
 108-298 3.66e-42

DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein and is activated by Myc protein. DDX18 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350700 [Multi-domain]  Cd Length: 198  Bit Score: 152.51  E-value: 3.66e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 108 KGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERL-KARSAQ-TGARALILSPTRELALQTMKFT 185
Cdd:cd17942   3 KAIEEMGFTKMTEIQAKSIPPLLEGRDVLGAAKTGSGKTLAFLIPAIELLyKLKFKPrNGTGVIIISPTRELALQIYGVA 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 186 KELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLV-HVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEII 264
Cdd:cd17942  83 KELLKYHSQTFGIVIGGANRKAEAEKLGKGVNILVATPGRLLdHLQNTKGFLYKNLQCLIIDEADRILEIGFEEEMRQII 162

                       170       180       190
                ....*....|....*....|....*....|....*
gi 28076989 265 GRLPGGHQTVLFSATLPKLLVEFARAGL-TEPVLI 298
Cdd:cd17942 163 KLLPKRRQTMLFSATQTRKVEDLARISLkKKPLYV 197
DEADc_DDX1 cd17938
DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ...
 97-280 4.76e-41

DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ATP-dependent RNA helicase, able to unwind both RNA-RNA and RNA-DNA duplexes. It possesses 5' single-stranded RNA overhang nuclease activity as well as ATPase activity on various RNA, but not DNA polynucleotides. DDX1 may play a role in RNA clearance at DNA double-strand breaks (DSBs), thereby facilitating the template-guided repair of transcriptionally active regions of the genome. It may also be involved in 3'-end cleavage and polyadenylation of pre-mRNAs. DDX1 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350696 [Multi-domain]  Cd Length: 204  Bit Score: 149.78  E-value: 4.76e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLkarsaqtgaRALILSPTRE 176
Cdd:cd17938   1 FEELGVMPELIKAVEELDWLLPTDIQAEAIPLILGGGDVLMAAETGSGKTGAFCLPVLQIV---------VALILEPSRE 71

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 177 LALQTMKFTKELGKFT---GLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFE 253
Cdd:cd17938  72 LAEQTYNCIENFKKYLdnpKLRVALLIGGVKAREQLKRLESGVDIVVGTPGRLEDLIKTGKLDLSSVRFFVLDEADRLLS 151

                       170       180       190
                ....*....|....*....|....*....|...
gi 28076989 254 MGFAEQLQEIIGRLPGGH------QTVLFSATL 280
Cdd:cd17938 152 QGNLETINRIYNRIPKITsdgkrlQVIVCSATL 184
DEADc_DDX19_DDX25 cd17963
DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called ...
 102-299 1.06e-40

DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called DEAD box RNA helicase DEAD5) and DDX25 (also called gonadotropin-regulated testicular RNA helicase (GRTH)) are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350721 [Multi-domain]  Cd Length: 196  Bit Score: 148.11  E-value: 1.06e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 102 LSYPVFKGIMKKGYKVPTPIQRKTIPVILDG--KDVVAMARTGSGKTACFLLPMFERLKARSAQTgaRALILSPTRELAL 179
Cdd:cd17963   1 LKPELLKGLYAMGFNKPSKIQETALPLILSDppENLIAQSQSGTGKTAAFVLAMLSRVDPTLKSP--QALCLAPTRELAR 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 180 QTMKFTKELGKFTGLKTALIL------GGDKMEDQfaalhenpdIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFE 253
Cdd:cd17963  79 QIGEVVEKMGKFTGVKVALAVpgndvpRGKKITAQ---------IVIGTPGTVLDWLKKRQLDLKKIKILVLDEADVMLD 149

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*..
gi 28076989 254 M-GFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIR 299
Cdd:cd17963 150 TqGHGDQSIRIKRMLPRNCQILLFSATFPDSVRKFAEKIAPNANTIK 196
DEADc_DDX20 cd17943
DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, ...
 106-299 4.38e-40

DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, Component Of Gems 3, Gemin-3, and SMN-Interacting Protein) interacts directly with SMN (survival of motor neurons), the spinal muscular atrophy gene product, and may play a catalytic role in the function of the SMN complex on ribonucleoproteins. Diseases associated with DDX20 include spinal muscular atrophy and muscular atrophy. DDX20 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350701 [Multi-domain]  Cd Length: 192  Bit Score: 146.25  E-value: 4.38e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 106 VFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTgaRALILSPTRELALQTMKFT 185
Cdd:cd17943   1 VLEGLKAAGFQRPSPIQLAAIPLGLAGHDLIVQAKSGTGKTLVFVVIALESLDLERRHP--QVLILAPTREIAVQIHDVF 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 186 KELG-KFTGLKTALILGGDKMEDQFAALhENPDIIIATPGRLVHVaVEMN-LKLQSVEYVVFDEADRLFEMGFAEQLQEI 263
Cdd:cd17943  79 KKIGkKLEGLKCEVFIGGTPVKEDKKKL-KGCHIAVGTPGRIKQL-IELGaLNVSHVRLFVLDEADKLMEGSFQKDVNWI 156

                       170       180       190
                ....*....|....*....|....*....|....*.
gi 28076989 264 IGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIR 299
Cdd:cd17943 157 FSSLPKNKQVIAFSATYPKNLDNLLARYMRKPVLVR 192
DEADc_DDX4 cd18052
DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA ...
 97-287 1.08e-38

DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA homolog) is an ATP-dependent RNA helicase required during spermatogenesis and is essential for the germline integrity. DEAD-box helicases are a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350810 [Multi-domain]  Cd Length: 264  Bit Score: 145.11  E-value: 1.08e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKAR----SAQTGAR---AL 169
Cdd:cd18052  45 FEEANLCETLLKNIRKAGYEKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPVLTGMMKEgltaSSFSEVQepqAL 124

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 170 ILSPTRELALQTMkftKELGKF---TGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFD 246
Cdd:cd18052 125 IVAPTRELANQIF---LEARKFsygTCIRPVVVYGGVSVGHQIRQIEKGCHILVATPGRLLDFIGRGKISLSKLKYLILD 201

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*....
gi 28076989 247 EADRLFEMGFAEQLQEII--GRLP--GGHQTVLFSATLP----KLLVEF 287
Cdd:cd18052 202 EADRMLDMGFGPEIRKLVsePGMPskEDRQTLMFSATFPeeiqRLAAEF 250
DEADc_EIF4AIII_DDX48 cd18045
DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor ...
 97-298 2.28e-38

DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor 4A-III (EIF4AIII, also known as DDX48) is part of the exon junction complex (EJC) that plays a major role in posttranscriptional regulation of mRNA. EJC consists of four proteins (eIF4AIII, Barentsz [Btz], Mago, and Y14), mRNA, and ATP. DDX48 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350803 [Multi-domain]  Cd Length: 201  Bit Score: 141.84  E-value: 2.28e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACF---LLPMFErLKARSAQtgarALILSP 173
Cdd:cd18045   1 FETMGLREDLLRGIYAYGFEKPSAIQQRAIKPIIKGRDVIAQSQSGTGKTATFsisVLQCLD-IQVRETQ----ALILSP 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 174 TRELALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFE 253
Cdd:cd18045  76 TRELAVQIQKVLLALGDYMNVQCHACIGGTSVGDDIRKLDYGQHIVSGTPGRVFDMIRRRSLRTRHIKMLVLDEADEMLN 155

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 28076989 254 MGFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd18045 156 KGFKEQIYDVYRYLPPATQVVLVSATLPQDILEMTNKFMTDPIRI 200
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
 115-289 3.46e-38

DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD box, X isoform, or DDX14) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. This protein has multiple conserved domains and is thought to play roles in both the nucleus and cytoplasm. Nuclear roles include transcriptional regulation, mRNP assembly, pre-mRNA splicing, and mRNA export. In the cytoplasm, this protein is thought to be involved in translation, cellular signaling, and viral replication. Misregulation of this gene has been implicated in tumorigenesis. Diseases associated with DDX3 include mental retardation, X-linked 102 and agenesis of the corpus callosum, with facial anomalies and robin sequence. DDX3 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350809 [Multi-domain]  Cd Length: 249  Bit Score: 142.87  E-value: 3.46e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 115 YKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLP----MFERLKARSAQTGAR----------ALILSPTRELALQ 180
Cdd:cd18051  41 YTKPTPVQKHAIPIIKSKRDLMACAQTGSGKTAAFLLPilsqIYEQGPGESLPSESGyygrrkqyplALVLAPTRELASQ 120

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 181 TMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQL 260
Cdd:cd18051 121 IYDEARKFAYRSRVRPCVVYGGADIGQQMRDLERGCHLLVATPGRLVDMLERGKIGLDYCKYLVLDEADRMLDMGFEPQI 200

                       170       180       190
                ....*....|....*....|....*....|...
gi 28076989 261 QEIIGR--LP--GGHQTVLFSATLPKLLVEFAR 289
Cdd:cd18051 201 RRIVEQdtMPptGERQTLMFSATFPKEIQMLAR 233
DEADc_EIF4AII_EIF4AI_DDX2 cd18046
DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation ...
 97-298 3.51e-36

DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation factor 4A-I (DDX2A) and eukaryotic initiation factor 4A-II (DDX2B) are involved in cap recognition and are required for mRNA binding to ribosome. They are DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350804 [Multi-domain]  Cd Length: 201  Bit Score: 135.65  E-value: 3.51e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTgaRALILSPTRE 176
Cdd:cd18046   1 FDDMNLKESLLRGIYAYGFEKPSAIQQRAIMPCIKGYDVIAQAQSGTGKTATFSISILQQIDTSLKAT--QALVLAPTRE 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 177 LALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGF 256
Cdd:cd18046  79 LAQQIQKVVMALGDYMGIKCHACIGGTSVRDDAQKLQAGPHIVVGTPGRVFDMINRRYLRTDYIKMFVLDEADEMLSRGF 158

                       170       180       190       200
                ....*....|....*....|....*....|....*....|..
gi 28076989 257 AEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLI 298
Cdd:cd18046 159 KDQIYDIFQKLPPDTQVVLLSATMPNDVLEVTTKFMRDPIRI 200
DEADc_DDX5 cd18049
DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, ...
 103-300 3.41e-35

DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, G17P1, or HUMP68) is involved in pathways that include the alteration of RNA structures, plays a role as a coregulator of transcription, a regulator of splicing, and in the processing of small noncoding RNAs. It synergizes with DDX17 and SRA1 RNA to activate MYOD1 transcriptional activity and is involved in skeletal muscle differentiation. Dysregulation of this gene may play a role in cancer development. DDX5 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350807 [Multi-domain]  Cd Length: 234  Bit Score: 133.98  E-value: 3.41e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 103 SYP--VFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKAR---SAQTGARALILSPTREL 177
Cdd:cd18049  30 NFPanVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQpflERGDGPICLVLAPTREL 109

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 178 ALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFA 257
Cdd:cd18049 110 AQQVQQVAAEYGRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLEAGKTNLRRCTYLVLDEADRMLDMGFE 189

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 28076989 258 EQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIRL 300
Cdd:cd18049 190 PQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINI 232
DEADc_DDX28 cd17948
DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box ...
 112-282 1.24e-34

DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box polypeptide 28) plays an essential role in facilitating the proper assembly of the mitochondrial large ribosomal subunit and its helicase activity is essential for this function. DDX28 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350706 [Multi-domain]  Cd Length: 231  Bit Score: 132.11  E-value: 1.24e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 112 KKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTGA-----RALILSPTRELALQTMKFTK 186
Cdd:cd17948   7 RQGITKPTTVQKQGIPSILRGRNTLCAAETGSGKTLTYLLPIIQRLLRYKLLAEGpfnapRGLVITPSRELAEQIGSVAQ 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 187 ELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEIIGR 266
Cdd:cd17948  87 SLTEGLGLKVKVITGGRTKRQIRNPHFEEVDILVATPGALSKLLTSRIYSLEQLRHLVLDEADTLLDDSFNEKLSHFLRR 166

                       170       180
                ....*....|....*....|....*....
gi 28076989 267 LP-------------GGHQTVLFSATLPK 282
Cdd:cd17948 167 FPlasrrsentdgldPGTQLVLVSATMPS 195
DEADc_DDX17 cd18050
DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or ...
 96-300 4.12e-33

DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or DEAD Box Protein P82) has a wide variety of functions including regulating the alternative splicing of exons exhibiting specific features such as the inclusion of AC-rich alternative exons in CD44 transcripts, playing a role in innate immunity, and promoting mRNA degradation mediated by the antiviral zinc-finger protein ZC3HAV1 in an ATPase-dependent manner. DDX17 synergizes with DDX5 and SRA1 RNA to activate MYOD1 transcriptional activity and is involved in skeletal muscle differentiation. DDX17 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350808 [Multi-domain]  Cd Length: 271  Bit Score: 128.98  E-value: 4.12e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  96 GFQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKAR---SAQTGARALILS 172
Cdd:cd18050  63 AFHQANFPQYVMDVLLDQNFKEPTPIQCQGFPLALSGRDMVGIAQTGSGKTLAYLLPAIVHINHQpylERGDGPICLVLA 142

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 173 PTRELALQTMKFTKELGKFTGLKTALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLF 252
Cdd:cd18050 143 PTRELAQQVQQVADDYGKSSRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLEAGKTNLRRCTYLVLDEADRML 222

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 28076989 253 EMGFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIRL 300
Cdd:cd18050 223 DMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLRDYVQINI 270
DEADc_DDX21_DDX50 cd17944
DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and ...
 120-289 3.78e-32

DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and nucleolar RNA helicase 2) is an RNA helicase that acts as a sensor of the transcriptional status of both RNA polymerase (Pol) I and II. It promotes ribosomal RNA (rRNA) processing and transcription from polymerase II (Pol II) and binds various RNAs, such as rRNAs, snoRNAs, 7SK and, at lower extent, mRNAs. DDX50 (also called Gu-Beta, Nucleolar Protein Gu2, and malignant cell derived RNA helicase). DDX21 and DDX50 have similar genomic structures and are in tandem orientation on chromosome 10, suggesting that the two genes arose by gene duplication in evolution. Diseases associated with DDX21 include stomach disease and cerebral creatine deficiency syndrome 3. Diseases associated with DDX50 include rectal disease. Both are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. Their name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.


Pssm-ID: 350702 [Multi-domain]  Cd Length: 202  Bit Score: 124.19  E-value: 3.78e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 120 PIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKA----RSAQTGARALILSPTRELALQTMKFTKELGKftGLK 195
Cdd:cd17944  15 PIQVKTFHPVYSGKDLIAQARTGTGKTFSFAIPLIEKLQEdqqpRKRGRAPKVLVLAPTRELANQVTKDFKDITR--KLS 92

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 196 TALILGGDKMEDQFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEIIGRL-----PGG 270
Cdd:cd17944  93 VACFYGGTPYQQQIFAIRNGIDILVGTPGRIKDHLQNGRLDLTKLKHVVLDEVDQMLDMGFAEQVEEILSVSykkdsEDN 172

                       170
                ....*....|....*....
gi 28076989 271 HQTVLFSATLPKLLVEFAR 289
Cdd:cd17944 173 PQTLLFSATCPDWVYNVAK 191
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
 94-282 6.26e-32

DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and is required for the export of mRNA out of the nucleus. DDX39B is an essential splicing factor required for association of U2 small nuclear ribonucleoprotein with pre-mRNA, and it also plays an important role in mRNA export from the nucleus to the cytoplasm. Diseases associated with DDX39A (also called UAP56-Related Helicase, 49 kDa) include gastrointestinal stromal tumor and inflammatory bowel disease 6, while diseases associated with DDX39B (also called 56 kDa U2AF65-Associated Protein) include Plasmodium vivax malaria. DDX39 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350708 [Multi-domain]  Cd Length: 208  Bit Score: 123.61  E-value: 6.26e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  94 SGGFQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTgaRALILSP 173
Cdd:cd17950   1 SSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLSTLQQLEPVDGQV--SVLVICH 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 174 TRELALQTMKFTKELGKF-TGLKTALILGGDKMEDQFAALHEN-PDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRL 251
Cdd:cd17950  79 TRELAFQISNEYERFSKYmPNVKTAVFFGGVPIKKDIEVLKNKcPHIVVGTPGRILALVREKKLKLSHVKHFVLDECDKM 158

                       170       180       190
                ....*....|....*....|....*....|..
gi 28076989 252 FE-MGFAEQLQEIIGRLPGGHQTVLFSATLPK 282
Cdd:cd17950 159 LEqLDMRRDVQEIFRATPHDKQVMMFSATLSK 190
DEADc_DDX51 cd17956
DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by ...
 112-280 1.57e-28

DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by regulating multiple signalling pathways. Mammalian DEAD box protein Ddx51 acts in 3' end maturation of 28S rRNA by promoting the release of U8 snoRNA.It is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350714 [Multi-domain]  Cd Length: 231  Bit Score: 114.65  E-value: 1.57e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 112 KKGYKVPTPIQRKTIPVILDG---------KDVVAMARTGSGKTACFLLPMFERLKARSAqTGARALILSPTRELALQTM 182
Cdd:cd17956   7 NNGITSAFPVQAAVIPWLLPSskstppyrpGDLCVSAPTGSGKTLAYVLPIVQALSKRVV-PRLRALIVVPTKELVQQVY 85

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 183 KFTKELGKFTGLKTALiLGGDK---------MEDQFAALHENPDIIIATPGRLV-HVAVEMNLKLQSVEYVVFDEADRL- 251
Cdd:cd17956  86 KVFESLCKGTGLKVVS-LSGQKsfkkeqkllLVDTSGRYLSRVDILVATPGRLVdHLNSTPGFTLKHLRFLVIDEADRLl 164

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*....
gi 28076989 252 ---FEmGFAEQLQEIIGR----------------LPGGH-QTVLFSATL 280
Cdd:cd17956 165 nqsFQ-DWLETVMKALGRptapdlgsfgdanlleRSVRPlQKLLFSATL 212
DEADc_DDX25 cd18048
DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated ...
 97-300 1.19e-24

DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated testicular RNA helicase (GRTH) is a testis-specific protein essential for completion of spermatogenesis. DDX25 is also a novel negative regulator of IFN pathway and facilitates RNA virus infection. Diseases associated with DDX25 include hydrolethalus syndrome, an autosomal recessive lethal malformation syndrome characterized by multiple developmental defects of fetus.. DDX25 (also called gonadotropin-regulated testicular RNA helicase) is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350806 [Multi-domain]  Cd Length: 229  Bit Score: 103.18  E-value: 1.19e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVILDG--KDVVAMARTGSGKTACFLLPMFERLKARsaQTGARALILSPT 174
Cdd:cd18048  20 FEELHLKEELLRGIYAMGFNRPSKIQENALPMMLADppQNLIAQSQSGTGKTAAFVLAMLSRVDAL--KLYPQCLCLSPT 97

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 175 RELALQTMKFTKELGKF-TGLKTALILGGDK------MEDQfaalhenpdIIIATPGRLVHVAVEMNL-KLQSVEYVVFD 246
Cdd:cd18048  98 FELALQTGKVVEEMGKFcVGIQVIYAIRGNRpgkgtdIEAQ---------IVIGTPGTVLDWCFKLRLiDVTNISVFVLD 168

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*
gi 28076989 247 EADRLFEM-GFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIRL 300
Cdd:cd18048 169 EADVMINVqGHSDHSVRVKRSMPKECQMLLFSATFEDSVWAFAERIVPDPNIIKL 223
DBP10CT pfam08147
DBP10CT (NUC160) domain; This C terminal domain is found in the Dbp10p subfamily of ...
 706-766 5.84e-23

DBP10CT (NUC160) domain; This C terminal domain is found in the Dbp10p subfamily of hypothetical RNA helicases.


Pssm-ID: 462373 [Multi-domain]  Cd Length: 66  Bit Score: 92.74  E-value: 5.84e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 28076989   706 DLMGDEAQNMSRGQQ---QLKWDRKKKRFVGQSGQED--KKKIKTESGRFISSSYKRDLYQKWKQK 766
Cdd:pfam08147   1 DLTGDDGQELNQQKQvqkKMRWDKKKKKFVKRSGNDEdgKKKIRTESGVKIPASYKSGRYDEWKKK 66
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 322-432 1.14e-22

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 93.43  E-value: 1.14e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   322 KAAVLLYLLQNvvRPQDQTVVFVATKHHAEyLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGL 401
Cdd:pfam00271   2 KLEALLELLKK--ERGGKVLIFSQTKKTLE-AELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGL 78

                          90       100       110
                  ....*....|....*....|....*....|.
gi 28076989   402 DIPLLDNVINYSFPAKGKLFLHRVGRVARAG 432
Cdd:pfam00271  79 DLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
DEADc_MRH4 cd17965
DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 ...
 114-282 4.16e-22

DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 (MRH4) plays an essential role during the late stages of mitochondrial ribosome or mitoribosome assembly by promoting remodeling of the 21S rRNA-protein interactions. MRH4 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350723 [Multi-domain]  Cd Length: 251  Bit Score: 96.68  E-value: 4.16e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 114 GYKVPTPIQRKTIPVIL------------DGKD-----VVAmARTGSGKTACFLLPMFERLKARSAQTG----------- 165
Cdd:cd17965  27 EEIKPSPIQTLAIKKLLktlmrkvtkqtsNEEPklevfLLA-AETGSGKTLAYLAPLLDYLKRQEQEPFeeaeeeyesak 105

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 166 ----ARALILSPTRELALQTMKFTKELGKFTGLKTALILG--GDKMEDQFAALHENPDIIIATPGRLVHVA-VEMNLkLQ 238
Cdd:cd17965 106 dtgrPRSVILVPTHELVEQVYSVLKKLSHTVKLGIKTFSSgfGPSYQRLQLAFKGRIDILVTTPGKLASLAkSRPKI-LS 184

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....
gi 28076989 239 SVEYVVFDEADRLFEMGFAEQLQEIIGRLPGGHQTVLFSATLPK 282
Cdd:cd17965 185 RVTHLVVDEADTLFDRSFLQDTTSIIKRAPKLKHLILCSATIPK 228
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
135-452 2.19e-21

Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 99.33  E-value: 2.19e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 135 VVAMArTGSGKT--ACFLlpmferlkARSAQTGARALILSPTRELALQTMKftkELGKFTGLKtalILGGDKMEDQFaal 212
Cdd:COG1061 104 LVVAP-TGTGKTvlALAL--------AAELLRGKRVLVLVPRRELLEQWAE---ELRRFLGDP---LAGGGKKDSDA--- 165

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 213 henpDIIIATPGRLVHVAVEMNLKlQSVEYVVFDEADRLFemgfAEQLQEIIGRLPGGHqTVLFSAT------LPKLLVE 286
Cdd:COG1061 166 ----PITVATYQSLARRAHLDELG-DRFGLVIIDEAHHAG----APSYRRILEAFPAAY-RLGLTATpfrsdgREILLFL 235

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 287 F------------ARAG-LTEPVLIRLDVD--------SKLNEQLKTSfLLVREDTKAAVLLYLLQNVVRpQDQTVVFVA 345
Cdd:COG1061 236 FdgivyeyslkeaIEDGyLAPPEYYGIRVDltderaeyDALSERLREA-LAADAERKDKILRELLREHPD-DRKTLVFCS 313

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 346 TKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNVINYSfPAKGK-LFLHR 424
Cdd:COG1061 314 SVDHAEALAELLNEAGIRAAVVTGDTPKKEREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAILLR-PTGSPrEFIQR 392

                       330       340       350
                ....*....|....*....|....*....|.
gi 28076989 425 VGRVARAGRSGTA---YSLVAPDeVPYLLDL 452
Cdd:COG1061 393 LGRGLRPAPGKEDalvYDFVGND-VPVLEEL 422
DEADc_DDX19 cd18047
DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both ...
 97-299 2.99e-21

DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both mRNA (mRNA) export from the nucleus into the cytoplasm and in mRNA translation. DDX19 functions in the nucleus in resolving RNA:DNA hybrids (R-loops). Activation of a DNA damage response pathway dependent upon the ATR kinase, a major regulator of replication fork progression, stimulates translocation of DDX19 from the cytoplasm into the nucleus. Only nuclear Ddx19 is competent to resolve R-loops. DDX19 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350805 [Multi-domain]  Cd Length: 205  Bit Score: 92.86  E-value: 2.99e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  97 FQSMGLSYPVFKGIMKKGYKVPTPIQRKTIPVIL--DGKDVVAMARTGSGKTACFLLPMFERLKArsAQTGARALILSPT 174
Cdd:cd18047   3 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLaePPQNLIAQSQSGTGKTAAFVLAMLSQVEP--ANKYPQCLCLSPT 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 175 RELALQTMKFTKELGKF-TGLKTALILGGDKMEdqfAALHENPDIIIATPGRLVHVAVEMNL-KLQSVEYVVFDEADRLF 252
Cdd:cd18047  81 YELALQTGKVIEQMGKFyPELKLAYAVRGNKLE---RGQKISEQIVIGTPGTVLDWCSKLKFiDPKKIKVFVLDEADVMI 157

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 28076989 253 -EMGFAEQLQEIIGRLPGGHQTVLFSATLPKLLVEFARAGLTEPVLIR 299
Cdd:cd18047 158 aTQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIK 205
HELICc smart00490
helicase superfamily c-terminal domain;
351-432 1.37e-17

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 78.02  E-value: 1.37e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989    351 EYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARGLDIPLLDNVINYSFPAKGKLFLHRVGRVAR 430
Cdd:smart00490   1 EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGR 80


                   ..
gi 28076989    431 AG 432
Cdd:smart00490  81 AG 82
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 132-279 5.06e-17

N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily 2 helicases comprise a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This N-terminal domain contains the ATP-binding region.


Pssm-ID: 350668 [Multi-domain]  Cd Length: 146  Bit Score: 78.60  E-value: 5.06e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 132 GKDVVAMARTGSGKTACFLLPMFERLKARsaqtGARALILSPTRELALQTMKFTKELGKfTGLKTALILGGDKMEDQFAA 211
Cdd:cd00046   1 GENVLITAPTGSGKTLAALLAALLLLLKK----GKKVLVLVPTKALALQTAERLRELFG-PGIRVAVLVGGSSAEEREKN 75

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 28076989 212 LHENPDIIIATPGRLVHVAVEMN-LKLQSVEYVVFDEADR-LFEMGFAEQLQEIIGRL-PGGHQTVLFSAT 279
Cdd:cd00046  76 KLGDADIIIATPDMLLNLLLREDrLFLKDLKLIIVDEAHAlLIDSRGALILDLAVRKAgLKNAQVILLSAT 146
YprA COG1205
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, ...
 122-473 4.45e-16

ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, recombination and repair];


Pssm-ID: 440818 [Multi-domain]  Cd Length: 758  Bit Score: 82.96  E-value: 4.45e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 122 QRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKARSaqtGARALILSPTRELA---LQTM-KFTKELGkfTGLKTA 197
Cdd:COG1205  61 QAEAIEAARAGKNVVIATPTASGKSLAYLLPVLEALLEDP---GATALYLYPTKALArdqLRRLrELAEALG--LGVRVA 135

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 198 lILGGDKMEDQFAALHENPDIIIATPGrLVHVAVemnLK--------LQSVEYVVFDEA---------------DRlfem 254
Cdd:COG1205 136 -TYDGDTPPEERRWIREHPDIVLTNPD-MLHYGL---LPhhtrwarfFRNLRYVVIDEAhtyrgvfgshvanvlRR---- 206

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 255 gfaeqLQEIIGRLpGGHQTVLF-SATL--PKllvEFARAgLT-EPVLIrldVDSKLNEQLKTSFLLV------REDTKAA 324
Cdd:COG1205 207 -----LRRICRHY-GSDPQFILaSATIgnPA---EHAER-LTgRPVTV---VDEDGSPRGERTFVLWnpplvdDGIRRSA 273

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 325 VLL--YLLQNVVRPQDQTVVFVATKHHAE----YLTELLMGQGV-SCAHIYSA--LDQTARKINlAKFTHNKCSTLIVT- 394
Cdd:COG1205 274 LAEaaRLLADLVREGLRTLVFTRSRRGAEllarYARRALREPDLaDRVAAYRAgyLPEERREIE-RGLRSGELLGVVSTn 352

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 395 --DLaarGLDIPLLDNVINYSFPakGKL--FLHRVGRVARAGRSGTAYsLVAPDEvP---YLLDlH--LFLGRSVtlarp 465
Cdd:COG1205 353 alEL---GIDIGGLDAVVLAGYP--GTRasFWQQAGRAGRRGQDSLVV-LVAGDD-PldqYYVR-HpeELFERPP----- 419


                ....*...
gi 28076989 466 ceEPSVAD 473
Cdd:COG1205 420 --EAAVID 425
DEXHc_Hrq1-like cd17923
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ...
 122-289 5.44e-16

DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a role in DNA inter-strand crosslink (ICL) repair and in telomere maintenance. Hrq1 lacks the Sld2-like domain found in RecQ4. Hrq1 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350681 [Multi-domain]  Cd Length: 182  Bit Score: 76.85  E-value: 5.44e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 122 QRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLkARsaQTGARALILSPTRELAL-QTMKFTKELGKF-TGLKTALI 199
Cdd:cd17923   5 QAEAIEAARAGRSVVVTTGTASGKSLCYQLPILEAL-LR--DPGSRALYLYPTKALAQdQLRSLRELLEQLgLGIRVATY 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 200 LGGDKMEDQFAALHENPDIIIATPGRLvHVAVemnLK--------LQSVEYVVFDEADRlFEMGFAEQLQEIIGRL---- 267
Cdd:cd17923  82 DGDTPREERRAIIRNPPRILLTNPDML-HYAL---LPhhdrwarfLRNLRYVVLDEAHT-YRGVFGSHVALLLRRLrrlc 156

                       170       180
                ....*....|....*....|....*
gi 28076989 268 --PGGH-QTVLFSATLpKLLVEFAR 289
Cdd:cd17923 157 rrYGADpQFILTSATI-GNPAEHAR 180
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 119-281 8.97e-15

DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350679 [Multi-domain]  Cd Length: 181  Bit Score: 73.45  E-value: 8.97e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 119 TPIQRKTI-PVILDGKDVVAMARTGSGKTACFLLPMFERLkarsAQTGARALILSPTRELALQ-TMKFTKELGKFtGLKT 196
Cdd:cd17921   3 NPIQREALrALYLSGDSVLVSAPTSSGKTLIAELAILRAL----ATSGGKAVYIAPTRALVNQkEADLRERFGPL-GKNV 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 197 ALILGGDKMEDQFAAlheNPDIIIATPGRLvhvavEM------NLKLQSVEYVVFDEADRLFEMGFAEQLQEIIGRLP-- 268
Cdd:cd17921  78 GLLTGDPSVNKLLLA---EADILVATPEKL-----DLllrnggERLIQDVRLVVVDEAHLIGDGERGVVLELLLSRLLri 149

                       170
                ....*....|....
gi 28076989 269 -GGHQTVLFSATLP 281
Cdd:cd17921 150 nKNARFVGLSATLP 163
BRR2 COG1204
Replicative superfamily II helicase [Replication, recombination and repair];
112-351 6.04e-10

Replicative superfamily II helicase [Replication, recombination and repair];


Pssm-ID: 440817 [Multi-domain]  Cd Length: 529  Bit Score: 62.61  E-value: 6.04e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 112 KKGYKVPTPIQRKTIP-VILDGKDVVAMARTGSGKTACFLLPMFerlkaRSAQTGARALILSPTRELALQTM-KFTKELG 189
Cdd:COG1204  17 ERGIEELYPPQAEALEaGLLEGKNLVVSAPTASGKTLIAELAIL-----KALLNGGKALYIVPLRALASEKYrEFKRDFE 91

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 190 KFtGLKTALILGGDKMEDQFAalhENPDIIIATPGR---LVHVAVEMnlkLQSVEYVVFDEA------DRlfemGFaeQL 260
Cdd:COG1204  92 EL-GIKVGVSTGDYDSDDEWL---GRYDILVATPEKldsLLRNGPSW---LRDVDLVVVDEAhliddeSR----GP--TL 158

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 261 QEIIGRL---PGGHQTVLFSATLPKlLVEFAR---AGLTE----PVLIRLDV--DSKLNEQLKTSFLLVRedtkaavLLY 328
Cdd:COG1204 159 EVLLARLrrlNPEAQIVALSATIGN-AEEIAEwldAELVKsdwrPVPLNEGVlyDGVLRFDDGSRRSKDP-------TLA 230

                       250       260
                ....*....|....*....|...
gi 28076989 329 LLQNVVRPQDQTVVFVATKHHAE 351
Cdd:COG1204 231 LALDLLEEGGQVLVFVSSRRDAE 253
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
141-250 2.31e-09

ERCC4-related helicase [Replication, recombination and repair];


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 61.28  E-value: 2.31e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 141 TGSGKTACFLLPMFERLKARsaqtGARALILSPTRELALQTMKFTKELGKFTGLKTALILGGDKMEDQfAALHENPDIII 220
Cdd:COG1111  26 TGLGKTAVALLVIAERLHKK----GGKVLFLAPTKPLVEQHAEFFKEALNIPEDEIVVFTGEVSPEKR-KELWEKARIIV 100

                        90       100       110
                ....*....|....*....|....*....|
gi 28076989 221 ATPGRLVHVAVEMNLKLQSVEYVVFDEADR 250
Cdd:COG1111 101 ATPQVIENDLIAGRIDLDDVSLLIFDEAHR 130
DEXHc_HFM1 cd18023
DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box ...
 121-223 3.29e-09

DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box helicase, required for crossover formation and complete synapsis of homologous chromosomes during meiosis. HFM1 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350781 [Multi-domain]  Cd Length: 206  Bit Score: 57.75  E-value: 3.29e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 121 IQRKTIPVILDG-KDVVAMARTGSGKTACFLLPMFERLKAR--SAQTGARALILSPTRELALQTMKFTKElgKF--TGLK 195
Cdd:cd18023   5 IQSEVFPDLLYSdKNFVVSAPTGSGKTVLFELAILRLLKERnpLPWGNRKVVYIAPIKALCSEKYDDWKE--KFgpLGLS 82

                        90       100
                ....*....|....*....|....*...
gi 28076989 196 TALILGGDKMEDQFAAlhENPDIIIATP 223
Cdd:cd18023  83 CAELTGDTEMDDTFEI--QDADIILTTP 108
DEXHc_RE cd17926
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ...
 135-280 4.88e-09

DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family is composed of helicase restriction enzymes and similar proteins such as TFIIH basal transcription factor complex helicase XPB subunit. These proteins are part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350684 [Multi-domain]  Cd Length: 146  Bit Score: 55.77  E-value: 4.88e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 135 VVAMArTGSGKTACFLLPMFERLKarsaqtgARALILSPTRELALQTMkftKELGKFTGLKTALILGGDKMEDQFAAlhe 214
Cdd:cd17926  22 ILVLP-TGSGKTLTALALIAYLKE-------LRTLIVVPTDALLDQWK---ERFEDFLGDSSIGLIGGGKKKDFDDA--- 87

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 28076989 215 npDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLfemgFAEQLQEIIGRLPGGHQtVLFSATL 280
Cdd:cd17926  88 --NVVVATYQSLSNLAEEEKDLFDQFGLLIVDEAHHL----PAKTFSEILKELNAKYR-LGLTATP 146
PRK13766 PRK13766
Hef nuclease; Provisional
 141-250 1.41e-08

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 58.73  E-value: 1.41e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  141 TGSGKTACFLLPMFERLKARsaqtGARALILSPTRELALQTMKFTKELGKFTGLKTALILGGDKMEDQfAALHENPDIII 220
Cdd:PRK13766  38 TGLGKTAIALLVIAERLHKK----GGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTGEVSPEKR-AELWEKAKVIV 112

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 28076989  221 ATPgrlvHVaVEMNL-----KLQSVEYVVFDEADR 250
Cdd:PRK13766 113 ATP----QV-IENDLiagriSLEDVSLLIFDEAHR 142
PRK13767 PRK13767
ATP-dependent helicase; Provisional
 112-351 1.20e-07

ATP-dependent helicase; Provisional


Pssm-ID: 237497 [Multi-domain]  Cd Length: 876  Bit Score: 55.66  E-value: 1.20e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  112 KKGYKVPTPIQRKTIPVILDGKDVVAMARTGSGKT-ACFLL---PMFERLKARSAQTGARALILSPTRELA-------LQ 180
Cdd:PRK13767  27 KEKFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTlAAFLAiidELFRLGREGELEDKVYCLYVSPLRALNndihrnlEE 106

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  181 TMKFTKELGKFTGLKTALI----LGGD-------KMedqfaaLHENPDIIIATPGRL--VHVAVEMNLKLQSVEYVVFDE 247
Cdd:PRK13767 107 PLTEIREIAKERGEELPEIrvaiRTGDtssyekqKM------LKKPPHILITTPESLaiLLNSPKFREKLRTVKWVIVDE 180

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  248 ADRLFE-------MGFAEQLQEIIGRLPgghQTVLFSATL-P-----KLLVEFARAGLTEPVLIrldVDSKLNEQLKTSF 314
Cdd:PRK13767 181 IHSLAEnkrgvhlSLSLERLEELAGGEF---VRIGLSATIePleevaKFLVGYEDDGEPRDCEI---VDARFVKPFDIKV 254

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....
gi 28076989  315 LLVRED---TKAAVL---LY-LLQNVVRPQDQTVVFVATKHHAE 351
Cdd:PRK13767 255 ISPVDDlihTPAEEIseaLYeTLHELIKEHRTTLIFTNTRSGAE 298
DEXHc_dicer cd18034
DEXH-box helicase domain of endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded ...
 133-248 2.28e-07

DEXH-box helicase domain of endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded RNA (dsRNA) precursors to generate microRNAs (miRNAs) and small interfering RNAs (siRNAs). In concert with Argonautes, these small RNAs bind complementary mRNAs to down-regulate their expression. miRNAs are processed by Dicer from small hairpins, while siRNAs are typically processed from longer dsRNA, from endogenous sources, or exogenous sources such as viral replication intermediates. Some organisms, such as Homo sapiens and Caenorhabditis elegans, encode one Dicer that generates miRNAs and siRNAs, but other organisms have multiple dicers with specialized functions. Dicers exist throughout eukaryotes, and a subset have an N-terminal helicase domain of the RIG-I-like receptor (RLR) subgroup. RLRs often function in innate immunity and Dicer helicase domains sometimes show differences in activity that correlate with roles in immunity. Dicer is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350792 [Multi-domain]  Cd Length: 200  Bit Score: 52.27  E-value: 2.28e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 133 KDVVAMARTGSGKT--ACFLLPMFERLKARSAQTGARALILSPTRELALQTmkfTKELGKFTGLKTAlILGGDKMEDQFA 210
Cdd:cd18034  17 RNTIVVLPTGSGKTliAVMLIKEMGELNRKEKNPKKRAVFLVPTVPLVAQQ---AEAIRSHTDLKVG-EYSGEMGVDKWT 92

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 28076989 211 ALH-----ENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEA 248
Cdd:cd18034  93 KERwkeelEKYDVLVMTAQILLDALRHGFLSLSDINLLIFDEC 135
DEXHc_RecQ cd17920
DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box ...
 108-303 4.14e-07

DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box helicase superfamily is a family of highly conserved DNA repair helicases. This domain contains the ATP-binding region.


Pssm-ID: 350678 [Multi-domain]  Cd Length: 200  Bit Score: 51.38  E-value: 4.14e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 108 KGIMKK--GYKVPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLP--MFERLkarsaqtgarALILSPTreLAL---Q 180
Cdd:cd17920   1 EQILKEvfGYDEFRPGQLEAINAVLAGRDVLVVMPTGGGKSLCYQLPalLLDGV----------TLVVSPL--ISLmqdQ 68

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 181 TMKFTKelgkfTGLKTALILGG----DKMEDQFAALHENPDIIIATPGRLVHVAVEMNL-KLQS---VEYVVFDEA---- 248
Cdd:cd17920  69 VDRLQQ-----LGIRAAALNSTlspeEKREVLLRIKNGQYKLLYVTPERLLSPDFLELLqRLPErkrLALIVVDEAhcvs 143

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28076989 249 ----DrlF--EMGfaeQLQEIIGRLPgGHQTVLFSATLPKLLVE--FARAGLTEPVLIRLDVD 303
Cdd:cd17920 144 qwghD--FrpDYL---RLGRLRRALP-GVPILALTATATPEVREdiLKRLGLRNPVIFRASFD 200
DEXHc_Hef cd18035
DEXH-box helicase domain of Hef; Hef (helicase-associated endonuclease fork-structure) belongs ...
 128-250 5.67e-07

DEXH-box helicase domain of Hef; Hef (helicase-associated endonuclease fork-structure) belongs to the XPF/MUS81/FANCM family of endonucleases and is involved in stalled replication fork repair. All archaea encode a protein of the XPF/MUS81/FANCM family of endonucleases. It exists in two forms: a long form, referred as Hef which consists of an N-terminal helicase fused to a C-terminal nuclease and is specific to euryarchaea and a short form, referred as XPF which lacks the helicase domain and is specific to crenarchaea and thaumarchaea. Hef has the unique feature of having both active helicase and nuclease domains. This domain configuration is highly similar with the human FANCM, a possible ortholog of archaeal Hef proteins. Hef is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350793 [Multi-domain]  Cd Length: 181  Bit Score: 50.59  E-value: 5.67e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 128 VILDGKDVVAMArTGSGKTACFLLPMFERLKARsaqtGARALILSPTRELALQTMKFTKELGKFTGLKTALIlgGDKMED 207
Cdd:cd18035  13 VALNGNTLIVLP-TGLGKTIIAILVAADRLTKK----GGKVLILAPSRPLVEQHAENLKRVLNIPDKITSLT--GEVKPE 85

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 28076989 208 QFAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADR 250
Cdd:cd18035  86 ERAERWDASKIIVATPQVIENDLLAGRITLDDVSLLIFDEAHH 128
DEXHc_RIG-I cd17927
DEXH-box helicase domain of DEAD-like helicase RIG-I family proteins; Members of the RIG-I ...
 130-250 1.25e-06

DEXH-box helicase domain of DEAD-like helicase RIG-I family proteins; Members of the RIG-I family include FANCM, dicer, Hef, and the RIG-I-like receptors. Fanconi anemia group M (FANCM) protein is a DNA-dependent ATPase component of the Fanconi anemia (FA) core complex required for the normal activation of the FA pathway, leading to monoubiquitination of the FANCI-FANCD2 complex in response to DNA damage, cellular resistance to DNA cross-linking drugs, and prevention of chromosomal breakage. Dicer ribonucleases cleave double-stranded RNA (dsRNA) precursors to generate microRNAs (miRNAs) and small interfering RNAs (siRNAs). Hef (helicase-associated endonuclease fork-structure) is involved in stalled replication fork repair. RIG-I-like receptors (RLRs) sense cytoplasmic viral RNA and comprises RIG-I, RLR-2/MDA5 (melanoma differentiation-associated protein 5) and RLR-3/LGP2 (laboratory of genetics and physiology 2). The RIG-I family is part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350685 [Multi-domain]  Cd Length: 201  Bit Score: 50.12  E-value: 1.25e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 130 LDGKDVVAMARTGSGKTACFLLPMFERLKARSAQTGARALILSPTRELALQTM-KFTKELGKfTGLKTALILGGDKMEDQ 208
Cdd:cd17927  15 LKGKNTIICLPTGSGKTFVAVLICEHHLKKFPAGRKGKVVFLANKVPLVEQQKeVFRKHFER-PGYKVTGLSGDTSENVS 93

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 28076989 209 FAALHENPDIIIATPGRLVHVAVEMNL-KLQSVEYVVFDEADR 250
Cdd:cd17927  94 VEQIVESSDVIIVTPQILVNDLKSGTIvSLSDFSLLVFDECHN 136
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
122-387 1.29e-06

Superfamily II DNA helicase RecQ [Replication, recombination and repair];


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 52.07  E-value: 1.29e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 122 QRKTIPVILDGKDVVAMARTGSGKTACFLLP--MFERLkarsaqtgarALILSPTreLALqtMK----FTKELgkftGLK 195
Cdd:COG0514  22 QEEIIEAVLAGRDALVVMPTGGGKSLCYQLPalLLPGL----------TLVVSPL--IAL--MKdqvdALRAA----GIR 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 196 TALI---LGGDKMEDQFAALHEN-PDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEA------------DRLfemgfaeQ 259
Cdd:COG0514  84 AAFLnssLSAEERREVLRALRAGeLKLLYVAPERLLNPRFLELLRRLKISLFAIDEAhcisqwghdfrpDYR-------R 156

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 260 LQEIIGRLPgGHQTVLFSATlpkllvefAraglTEPVliRLDVDSKLN----EQLKTSF------LLVREDTKAAVLLYL 329
Cdd:COG0514 157 LGELRERLP-NVPVLALTAT--------A----TPRV--RADIAEQLGledpRVFVGSFdrpnlrLEVVPKPPDDKLAQL 221

                       250       260       270       280       290       300
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 330 LQNVV-RPQDQTVVFVATKHHAEYLTELLMGQGVSCAHiYSA-LDQTARKINLAKFTHNK 387
Cdd:COG0514 222 LDFLKeHPGGSGIVYCLSRKKVEELAEWLREAGIRAAA-YHAgLDAEEREANQDRFLRDE 280
ResIII pfam04851
Type III restriction enzyme, res subunit;
123-279 1.77e-06

Type III restriction enzyme, res subunit;


Pssm-ID: 398492 [Multi-domain]  Cd Length: 162  Bit Score: 48.82  E-value: 1.77e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   123 RKTIPVILDGKD--VVAMArTGSGKTACFLLPMFERLKARSAQtgaRALILSPTRELALQTMK-FTKELGKFTGLKTalI 199
Cdd:pfam04851  13 ENLLESIKNGQKrgLIVMA-TGSGKTLTAAKLIARLFKKGPIK---KVLFLVPRKDLLEQALEeFKKFLPNYVEIGE--I 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989   200 LGGDKMEDQFaalhENPDIIIATPGRLvHVAVEMNLKLQSVE---YVVFDEADRLfemgFAEQLQEIIGRLPggHQTVL- 275
Cdd:pfam04851  87 ISGDKKDESV----DDNKIVVTTIQSL-YKALELASLELLPDffdVIIIDEAHRS----GASSYRNILEYFK--PAFLLg 155


                  ....
gi 28076989   276 FSAT 279
Cdd:pfam04851 156 LTAT 159
DEXHc_RecG cd17918
DEXH/Q-box helicase domain of DEAD-like helicase RecG family proteins; The DEAD-like helicase ...
 118-250 9.56e-06

DEXH/Q-box helicase domain of DEAD-like helicase RecG family proteins; The DEAD-like helicase RecG family is part of the DEAD-like helicases superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350676 [Multi-domain]  Cd Length: 180  Bit Score: 47.03  E-value: 9.56e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 118 PTPIQRKTIPVIL-DGKDVVAMAR-----TGSGKTACFLLPMFERLKArsaqtGARALILSPTRELALQTMKFTKELgkF 191
Cdd:cd17918  16 LTKDQAQAIKDIEkDLHSPEPMDRllsgdVGSGKTLVALGAALLAYKN-----GKQVAILVPTEILAHQHYEEARKF--L 88

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 28076989 192 TGLKTALILGGDKMEDQfaalhENPDIIIATPGrLVHVAVemnlKLQSVEYVVFDEADR 250
Cdd:cd17918  89 PFINVELVTGGTKAQIL-----SGISLLVGTHA-LLHLDV----KFKNLDLVIVDEQHR 137
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 320-412 1.57e-05

C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) family includes chromatin-remodeling factors, such as CHD proteins and SMARCA proteins, recombination proteins Rad54, and many others. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350180 [Multi-domain]  Cd Length: 135  Bit Score: 45.16  E-value: 1.57e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 320 DTKAAVLLYLLQNVVRPQDQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCST--LIVTDLA 397
Cdd:cd18793  10 SGKLEALLELLEELREPGEKVLIFSQFTDTLDILEEALRERGIKYLRLDGSTSSKERQKLVDRFNEDPDIRvfLLSTKAG 89

                        90
                ....*....|....*
gi 28076989 398 ARGLDIPLLDNVINY 412
Cdd:cd18793  90 GVGLNLTAANRVILY 104
SF2_C_RecQ cd18794
C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an ...
 314-435 2.58e-05

C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an evolutionarily conserved class of enzymes, dedicated to preserving genomic integrity by operating in telomere maintenance, DNA repair, and replication. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350181 [Multi-domain]  Cd Length: 134  Bit Score: 44.89  E-value: 2.58e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 314 FLLVREDTKAAVLLYLLQNVVR--PQDQTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTL 391
Cdd:cd18794   5 FYSVRPKDKKDEKLDLLKRIKVehLGGSGIIYCLSRKECEQVAARLQSKGISAAAYHAGLEPSDRRDVQRKWLRDKIQVI 84

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 28076989 392 IVTDLAARGLDIPLLDNVINYSFPAKGKLFLHRVGrvaRAGRSG 435
Cdd:cd18794  85 VATVAFGMGIDKPDVRFVIHYSLPKSMESYYQESG---RAGRDG 125
Lhr COG1201
Lhr-like helicase [Replication, recombination and repair];
115-247 3.60e-05

Lhr-like helicase [Replication, recombination and repair];


Pssm-ID: 440814 [Multi-domain]  Cd Length: 850  Bit Score: 47.40  E-value: 3.60e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 115 YKVPTPIQRKTIPVILDGKDVVAMARTGSGKT-ACFLLP---MFERLKARSAQTGARALILSPTRELA------LQTmkF 184
Cdd:COG1201  22 FGAPTPPQREAWPAIAAGESTLLIAPTGSGKTlAAFLPAldeLARRPRPGELPDGLRVLYISPLKALAndiernLRA--P 99

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 28076989 185 TKELGKFTGLKTALI-LG---GDKMEDQFAALHEN-PDIIIATP-----------GRlvhvavEMnlkLQSVEYVVFDE 247
Cdd:COG1201 100 LEEIGEAAGLPLPEIrVGvrtGDTPASERQRQRRRpPHILITTPeslallltspdAR------EL---LRGVRTVIVDE 169
Dob10 COG4581
Superfamily II RNA helicase [Replication, recombination and repair];
120-294 6.04e-05

Superfamily II RNA helicase [Replication, recombination and repair];


Pssm-ID: 443638 [Multi-domain]  Cd Length: 751  Bit Score: 46.86  E-value: 6.04e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 120 PIQRKTIPVILDGKDVVAMARTGSGKT--ACFLLpmFERLkarsaQTGARALILSPTRELALQtmKFtKELGKFTGLKTA 197
Cdd:COG4581  28 PFQEEAILALEAGRSVLVAAPTGSGKTlvAEFAI--FLAL-----ARGRRSFYTAPIKALSNQ--KF-FDLVERFGAENV 97

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 198 LILGGDkmedqfaaLHENPD--IIIATpgrlvhvaVEM--NL------KLQSVEYVVFDE----ADRlfEMGFAeqLQEI 263
Cdd:COG4581  98 GLLTGD--------ASVNPDapIVVMT--------TEIlrNMlyregaDLEDVGVVVMDEfhylADP--DRGWV--WEEP 157

                       170       180       190
                ....*....|....*....|....*....|.
gi 28076989 264 IGRLPGGHQTVLFSATLPKllVEFARAGLTE 294
Cdd:COG4581 158 IIHLPARVQLVLLSATVGN--AEEFAEWLTR 186
DEXHc_archSki2 cd18028
DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play ...
 120-281 8.92e-05

DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play an important role in RNA degradation, processing and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350786 [Multi-domain]  Cd Length: 177  Bit Score: 44.25  E-value: 8.92e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 120 PIQRKTI-PVILDGKDVVAMARTGSGKTACFLLPMFerlkaRSAQTGARALILSPTRELALQTMKFTKELGKFtGLKTAL 198
Cdd:cd18028   4 PPQAEAVrAGLLKGENLLISIPTASGKTLIAEMAMV-----NTLLEGGKALYLVPLRALASEKYEEFKKLEEI-GLKVGI 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 199 ILGGDKMEDQFaaLHENpDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEIIGR---LPGGHQTVL 275
Cdd:cd18028  78 STGDYDEDDEW--LGDY-DIIVATYEKFDSLLRHSPSWLRDVGVVVVDEIHLISDEERGPTLESIVARlrrLNPNTQIIG 154


                ....*.
gi 28076989 276 FSATLP 281
Cdd:cd18028 155 LSATIG 160
PRK00254 PRK00254
ski2-like helicase; Provisional
 129-302 1.02e-04

ski2-like helicase; Provisional


Pssm-ID: 234702 [Multi-domain]  Cd Length: 720  Bit Score: 45.96  E-value: 1.02e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  129 ILDGKDVVAMARTGSGKTACFLLPMFERLkarsAQTGARALILSPTRELALQTMKFTKELGKFtGLKTALILGGDKMEDQ 208
Cdd:PRK00254  36 VLEGKNLVLAIPTASGKTLVAEIVMVNKL----LREGGKAVYLVPLKALAEEKYREFKDWEKL-GLRVAMTTGDYDSTDE 110

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989  209 FAALHenpDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEIIGRLPGGHQTVLFSATL--PKLLVE 286
Cdd:PRK00254 111 WLGKY---DIIIATAEKFDSLLRHGSSWIKDVKLVVADEIHLIGSYDRGATLEMILTHMLGRAQILGLSATVgnAEELAE 187

                        170       180
                 ....*....|....*....|
gi 28076989  287 FARAGLT----EPVLIRLDV 302
Cdd:PRK00254 188 WLNAELVvsdwRPVKLRKGV 207
DEXHc_RecQ1 cd18015
DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ ...
 120-152 1.82e-04

DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350773 [Multi-domain]  Cd Length: 209  Bit Score: 43.51  E-value: 1.82e-04
                        10        20        30
                ....*....|....*....|....*....|...
gi 28076989 120 PIQRKTIPVILDGKDVVAMARTGSGKTACFLLP 152
Cdd:cd18015  21 PLQLETINATMAGRDVFLVMPTGGGKSLCYQLP 53
DEXHc_RE_I_III_res cd18032
DEXH-box helicase domain of type III restriction enzyme res subunit; Members of this model ...
 136-250 2.72e-04

DEXH-box helicase domain of type III restriction enzyme res subunit; Members of this model includes both type I and type III restriction enzymes. Both are hetero-oligomeric proteins. Type I REs are encoded by three closely linked genes: a specificity subunit (HsdS or S) for recognizing a DNA sequence, a methylation subunit (HsdM or M) for methylating the recognized target bases, and a restriction subunit (HsdR or R) for the translocation and random cleavage of non-methylated DNA. They show diverse catalytic activities, including methyltransferase (MTase), ATP hydrolase (ATPase), DNA translocation and restriction activities. These enzymes cut at a site that differs, and is a random distance (at least 1000 bp) away, from their recognition site. Cleavage at these random sites follows a process of DNA translocation, which shows that these enzymes are also molecular motors. The recognition site is asymmetrical and is composed of two specific portions: one containing 3-4 nucleotides, and another containing 4-5 nucleotides, separated by a non-specific spacer of about 6-8 nucleotides. Type III enzymes are composed of two subunits, Res and Mod. The Mod subunit recognizes the DNA sequence specific for the system and is a modification methyltransferase; as such, it is functionally equivalent to the M and S subunits of type I restriction endonucleases. Res is required for restriction, although it has no enzymatic activity on its own. Type III enzymes recognize short 5-6 bp-long asymmetric DNA sequences and cleave 25-27 bp downstream to leave short, single-stranded 5' protrusions. They require the presence of two inversely oriented unmethylated recognition sites for restriction to occur. These enzymes methylate only one strand of the DNA, at the N-6 position of adenosyl residues, so newly replicated DNA will have only one strand methylated, which is sufficient to protect against restriction. Both type I and type III REs are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350790 [Multi-domain]  Cd Length: 163  Bit Score: 42.55  E-value: 2.72e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 136 VAMArTGSGKT--ACFLlpmFERLKarSAQTGARALILSPTRELALQTMkftKELGKFTGLKTALILGGDKMEDQFAalh 213
Cdd:cd18032  25 LVMA-TGTGKTytAAFL---IKRLL--EANRKKRILFLAHREELLEQAE---RSFKEVLPDGSFGNLKGGKKKPDDA--- 92

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 28076989 214 enpDIIIATPGRLVHvavEMNLKLQSVE---YVVFDEADR 250
Cdd:cd18032  93 ---RVVFATVQTLNK---RKRLEKFPPDyfdLIIIDEAHH 126
SF2_C_EcoAI-like cd18799
C-terminal helicase domain of EcoAI HsdR-like restriction enzyme family helicases; This family ...
 340-410 3.83e-04

C-terminal helicase domain of EcoAI HsdR-like restriction enzyme family helicases; This family is composed of helicase restriction enzymes, including the HsdR subunit of restriction-modification enzymes such as Escherichia coli type I restriction enzyme EcoAI R protein (R.EcoAI). The EcoAI enzyme recognizes 5'-GAGN(7)GTCA-3'. The HsdR or R subunit is required for both nuclease and ATPase activities, but not for modification. These proteins are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350186 [Multi-domain]  Cd Length: 116  Bit Score: 41.01  E-value: 3.83e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 28076989 340 TVVFVATKHHAEYLTELLMGQGVSCAHIYSalDQTARKINLAK----FTHNKCSTLIVT-DLAARGLDIPLLDNVI 410
Cdd:cd18799   9 TLIFCVSIEHAEFMAEAFNEAGIDAVALNS--DYSDRERGDEAlillFFGELKPPILVTvDLLTTGVDIPEVDNVV 82
DEXHc_SKIV2L cd18027
DEXH-box helicase domain of SKIV2L; Superkiller viralicidic activity 2-like (SKIV2L, also ...
 118-288 4.16e-04

DEXH-box helicase domain of SKIV2L; Superkiller viralicidic activity 2-like (SKIV2L, also called SKI2 or DHX13) plays a role in a number of cellular processes involving alteration of RNA secondary structure such as translation initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. SKIV2L belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350785 [Multi-domain]  Cd Length: 179  Bit Score: 42.25  E-value: 4.16e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 118 PTPIQRKTIPVILDGKDVVAMARTGSGKTAcfllpMFERLKARSAQTGARALILSPTRELALQTMKFTKELGKFTGLKTa 197
Cdd:cd18027   9 LDVFQKQAILHLEAGDSVFVAAHTSAGKTV-----VAEYAIALAQKHMTRTIYTSPIKALSNQKFRDFKNTFGDVGLIT- 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 198 lilgGDkmedqfAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEADRLFEMGFAEQLQEIIGRLPGGHQTVLFS 277
Cdd:cd18027  83 ----GD------VQLNPEASCLIMTTEILRSMLYNGSDVIRDLEWVIFDEVHYINDAERGVVWEEVLIMLPDHVSIILLS 152

                       170
                ....*....|.
gi 28076989 278 ATLPKlLVEFA 288
Cdd:cd18027 153 ATVPN-TVEFA 162
DEXHc_LHR-like cd17922
DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA ...
 132-247 5.11e-04

DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA damage-inducible helicase that uses ATP hydrolysis to drive unidirectional 3'-to-5' translocation along single-stranded DNA (ssDNA) and to unwind RNA:DNA duplexes. This group also includes related bacterial and archaeal helicases from the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350680 [Multi-domain]  Cd Length: 166  Bit Score: 41.80  E-value: 5.11e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 132 GKDVVAMARTGSGKTACFLLPMFERLkARSAQTGARALILSPTRELALQTMKFTKELGKFTGLK-TALILGGDKMEDQFA 210
Cdd:cd17922   1 GRNVLIAAPTGSGKTEAAFLPALSSL-ADEPEKGVQVLYISPLKALINDQERRLEEPLDEIDLEiPVAVRHGDTSQSEKA 79

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 28076989 211 ALHEN-PDIIIATPGRL--VHVAVEMNLKLQSVEYVVFDE 247
Cdd:cd17922  80 KQLKNpPGILITTPESLelLLVNKKLRELFAGLRYVVVDE 119
Cas3_I cd09639
CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short ...
 134-433 8.54e-04

CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I


Pssm-ID: 187770 [Multi-domain]  Cd Length: 353  Bit Score: 42.42  E-value: 8.54e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 134 DVVAMARTGSGKTACFLLPMFERLKARSAQTGARALilsPTRELALQTMKFTKELGKFTGLKTALILGGDKME----DQF 209
Cdd:cd09639   1 LLVIEAPTGYGKTEAALLWALHSLKSQKADRVIIAL---PTRATINAMYRRAKEAFGETGLYHSSILSSRIKEmgdsEEF 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 210 AAL-----HENPD-----IIIATPGRLV----HVAVEMNLKLQSVEY--VVFDEADRL--FEMGFAEQLQEIIGRLPGGH 271
Cdd:cd09639  78 EHLfplyiHSNDTlfldpITVCTIDQVLksvfGEFGHYEFTLASIANslLIFDEVHFYdeYTLALILAVLEVLKDNDVPI 157

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 272 qtVLFSATLPKLLVEFARAglTEPVLIRLDVDSKLNEQLKTSFLLVREDTKAAVLLYLLQNVVRPQDQTVVFVATKHHAE 351
Cdd:cd09639 158 --LLMSATLPKFLKEYAEK--IGYVEENEPLDLKPNERAPFIKIESDKVGEISSLERLLEFIKKGGSVAIIVNTVDRAQE 233

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 352 Y---LTELLMGQGVSCAHIYSALDQTARKIN--LAKFTHNKCSTLIVTDLAARGLDIpllDNVINYSFPAKGKLFLHRVG 426
Cdd:cd09639 234 FyqqLKEKGPEEEIMLIHSRFTEKDRAKKEAelLLEFKKSEKFVIVATQVIEASLDI---SVDVMITELAPIDSLIQRLG 310


                ....*..
gi 28076989 427 RVARAGR 433
Cdd:cd09639 311 RLHRYGE 317
DEXHc_Brr2_2 cd18021
C-terminal D[D/E]X[H/Q]-box helicase domain of spliceosomal Brr2 RNA helicase; Brr2 is a type ...
 120-223 1.68e-03

C-terminal D[D/E]X[H/Q]-box helicase domain of spliceosomal Brr2 RNA helicase; Brr2 is a type II DEAD box helicase that mediates spliceosome catalytic activation. It is a stable subunit of the spliceosome, required during splicing catalysis and spliceosome disassembly. Brr2 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350779 [Multi-domain]  Cd Length: 191  Bit Score: 40.32  E-value: 1.68e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 120 PIQRKTIPVILDGKD-VVAMARTGSGKTACFLLPMferLKARSAQTGARALILSPTRELALQTM-----KFTKELGkftg 193
Cdd:cd18021   6 PIQTQVFNSLYNTDDnVFVGAPTGSGKTVCAELAL---LRHWRQNPKGRAVYIAPMQELVDARYkdwraKFGPLLG---- 78

                        90       100       110
                ....*....|....*....|....*....|
gi 28076989 194 lKTALILGGDKMEDqfAALHENPDIIIATP 223
Cdd:cd18021  79 -KKVVKLTGETSTD--LKLLAKSDVILATP 105
DEXHc_RLR cd18036
DEXH-box helicase domain of RIG-I-like receptors; RIG-I-like receptors (RLRs) sense ...
 117-247 2.00e-03

DEXH-box helicase domain of RIG-I-like receptors; RIG-I-like receptors (RLRs) sense cytoplasmic viral RNA and comprise RIG-I, RLR-2/MDA5 (melanoma differentiation-associated protein 5) and RLR-3/LGP2 (laboratory of genetics and physiology 2). RIG-I-like receptors (RLRs) are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350794 [Multi-domain]  Cd Length: 204  Bit Score: 40.54  E-value: 2.00e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 117 VPTPIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFERLKAR-SAQTGARALILSPTRELALQTM-KFTKELGKftGL 194
Cdd:cd18036   2 ELRNYQLELVLPALRGKNTIICAPTGSGKTRVAVYICRHHLEKRrSAGEKGRVVVLVNKVPLVEQQLeKFFKYFRK--GY 79

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 28076989 195 KTALILGGDKMEDQFAALHENPDIIIATPGRLVH----VAVEMNLKLQSVEYVVFDE 247
Cdd:cd18036  80 KVTGLSGDSSHKVSFGQIVKASDVIICTPQILINnllsGREEERVYLSDFSLLIFDE 136
DEXHc_Mtr4-like cd18024
DEXH-box helicase domain of ATP-dependent RNA helicase Mtr4; Mtr4 (also known as DOB1 or ...
 102-289 2.54e-03

DEXH-box helicase domain of ATP-dependent RNA helicase Mtr4; Mtr4 (also known as DOB1 or SKIV2L2) is a type II DEAD box helicase that plays a role in the processing of structured RNAs, including the maturation of 5.8S ribosomal RNA (rRNA)and is part of the TRAMP complex that is involved in exosome-mediated degradation of aberrant RNAs. Mtr4 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350782 [Multi-domain]  Cd Length: 205  Bit Score: 40.12  E-value: 2.54e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 102 LSYPVFKGIMKKGYK-VPTPIQRKTIPVILDGKDVVAMARTGSGKTACfllpmFERLKARSAQTGARALILSPTRELALQ 180
Cdd:cd18024  16 ISAHKPPGNPARTYPfTLDPFQKTAIACIERNESVLVSAHTSAGKTVV-----AEYAIAQSLRDKQRVIYTSPIKALSNQ 90

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 181 TMK-FTKELGKfTGLKTalilgGDkmedqfAALHENPDIIIATPGRLVHVAVEMNLKLQSVEYVVFDEA----DRlfEMG 255
Cdd:cd18024  91 KYReLQEEFGD-VGLMT-----GD------VTINPNASCLVMTTEILRSMLYRGSEIMREVAWVIFDEIhymrDK--ERG 156

                       170       180       190
                ....*....|....*....|....*....|....
gi 28076989 256 FAeqLQEIIGRLPGGHQTVLFSATLPKLLvEFAR 289
Cdd:cd18024 157 VV--WEETIILLPDKVRYVFLSATIPNAR-QFAE 187
DEXHc_RecQ4-like cd18018
DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) ...
 120-248 3.71e-03

DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Mutations cause Rothmund-Thomson/RAPADILINO/Baller-Gerold syndrome.


Pssm-ID: 350776 [Multi-domain]  Cd Length: 201  Bit Score: 39.55  E-value: 3.71e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28076989 120 PIQRKTIPVILDGKDVVAMARTGSGKTACFLLPMFerlkARSAQTGARALILSPTreLALqtMK-FTKELGKFtgLKTAL 198
Cdd:cd18018  15 PGQEEAIARLLSGRSTLVVLPTGAGKSLCYQLPAL----LLRRRGPGLTLVVSPL--IAL--MKdQVDALPRA--IKAAA 84

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*
gi 28076989 199 ILGGDKMEDQFAALHE----NPDIIIATPGRLVHVA-VEMNLKLQSVEYVVFDEA 248
Cdd:cd18018  85 LNSSLTREERRRILEKlragEVKILYVSPERLVNESfRELLRQTPPISLLVVDEA 139
VirD4 COG3505
Type IV secretory pathway, VirD4 component, TraG/TraD family ATPase [Intracellular trafficking, ...
 135-190 7.06e-03

Type IV secretory pathway, VirD4 component, TraG/TraD family ATPase [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442728 [Multi-domain]  Cd Length: 402  Bit Score: 39.58  E-value: 7.06e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 28076989 135 VVAMARTGSGKTACFLLPMferlkARSAQTGARALILSPTRELALQTMKFTKELGK 190
Cdd:COG3505   2 VLVIGPTGSGKTVGLVIPN-----LTQLARGESVVVTDPKGDLAELTAGFRRRAGY 52
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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