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Conserved domains on  [gi|556954799|ref|XP_005988994|]
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ATP-dependent RNA helicase DDX55 [Latimeria chalumnae]

Protein Classification

DDX55/SPB4 family DEAD/DEAH box RNA helicase( domain architecture ID 13028873)

DDX55/SPB4 family DEAD/DEAH box containing ATP-dependent RNA helicase catalyzes the unwinding of RNA, similar to ATP-dependent rRNA helicase SPB4 that is involved in the biogenesis of 60S ribosomal subunits

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_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 21-225 1.15e-124

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: 365.36  E-value: 1.15e-124
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKKMQVGAIIITPTRELAIQIN 100
Cdd:cd17960    1 ILDVVAELGFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLEILLKRKANLKKGQVGALIISPTRELATQIY 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 101 EVLTHF-NKHFPQFRQILLIGGSNPIEDVEKFKEHGGNIIIATPGRLEDMFRRKADgldlATCVKTLDVLVLDEADRLLD 179
Cdd:cd17960   81 EVLQSFlEHHLPKLKCQLLIGGTNVEEDVKKFKRNGPNILVGTPGRLEELLSRKAD----KVKVKSLEVLVLDEADRLLD 156

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 556954799 180 MGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIT 225
Cdd:cd17960  157 LGFEADLNRILSKLPKQRRTGLFSATQTDAVEELIKAGLRNPVRVV 202
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 243-373 1.21e-48

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: 165.37  E-value: 1.21e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 243 LKNYYMICRTDEKFNQLVA-FLRQHKREKHLIFFSTCACVEYYGKGLEGLvkNVKIMCIHGKMKHK-RNKIFTDFRQLES 320
Cdd:cd18787    1 IKQLYVVVEEEEKKLLLLLlLLEKLKPGKAIIFVNTKKRVDRLAELLEEL--GIKVAALHGDLSQEeRERALKKFRSGKV 78

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 556954799 321 GILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFL 373
Cdd:cd18787   79 RVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 406-463 4.34e-19

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


:

Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 80.90  E-value: 4.34e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 556954799  406 PKLKSMAMCDRAVFEKGMRAFVSFVQAYAKHECSLIFRLKDLNFASLARGFALLKMPK 463
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAPK 59
 
Name Accession Description Interval E-value
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 21-225 1.15e-124

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: 365.36  E-value: 1.15e-124
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKKMQVGAIIITPTRELAIQIN 100
Cdd:cd17960    1 ILDVVAELGFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLEILLKRKANLKKGQVGALIISPTRELATQIY 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 101 EVLTHF-NKHFPQFRQILLIGGSNPIEDVEKFKEHGGNIIIATPGRLEDMFRRKADgldlATCVKTLDVLVLDEADRLLD 179
Cdd:cd17960   81 EVLQSFlEHHLPKLKCQLLIGGTNVEEDVKKFKRNGPNILVGTPGRLEELLSRKAD----KVKVKSLEVLVLDEADRLLD 156

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 556954799 180 MGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIT 225
Cdd:cd17960  157 LGFEADLNRILSKLPKQRRTGLFSATQTDAVEELIKAGLRNPVRVV 202
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
16-400 3.70e-117

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 354.45  E-value: 3.70e-117
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  16 KLNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKlkkmQVGAIIITPTREL 95
Cdd:COG0513    8 GLSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQRLDPSRPR----APQALILAPTREL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  96 AIQINEVLTHFNKHFPqFRQILLIGGSNPIEDVEKFKeHGGNIIIATPGRLEDMFRRKAdgLDLatcvKTLDVLVLDEAD 175
Cdd:COG0513   84 ALQVAEELRKLAKYLG-LRVATVYGGVSIGRQIRALK-RGVDIVVATPGRLLDLIERGA--LDL----SGVETLVLDEAD 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 176 RLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRITVKEKgvaasntQKTPARLKNYYMICRTDEK 255
Cdd:COG0513  156 RMLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPE-------NATAETIEQRYYLVDKRDK 228

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 256 FNQLVAFLRQHKREKHLIFFSTCACVEYYGKGLEGlvKNVKIMCIHGKM-KHKRNKIFTDFRQLESGILVCTDVMARGID 334
Cdd:COG0513  229 LELLRRLLRDEDPERAIVFCNTKRGADRLAEKLQK--RGISAAALHGDLsQGQRERALDAFRNGKIRVLVATDVAARGID 306

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 556954799 335 IPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFLLPMEESYVNFL--SINQKCPMQEMKPLKD 400
Cdd:COG0513  307 IDDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIekLIGQKIEEEELPGFEP 374
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 5-412 1.57e-66

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 223.91  E-value: 1.57e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799   5 MEEGAWESLPvkLNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILlrredKLKKMQV 84
Cdd:PRK11776   1 MSMTAFSTLP--LPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKL-----DVKRFRV 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  85 GAIIITPTRELAIQI-NE------------VLThfnkhfpqfrqilLIGGSnPIEDVEKFKEHGGNIIIATPGRLEDMFR 151
Cdd:PRK11776  74 QALVLCPTRELADQVaKEirrlarfipnikVLT-------------LCGGV-PMGPQIDSLEHGAHIIVGTPGRILDHLR 139

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 152 RKAdgLDLATcvktLDVLVLDEADRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRITVKEKGV 231
Cdd:PRK11776 140 KGT--LDLDA----LNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTHD 213

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 232 AASNTQKtparlknYYMICRtDEKFNQLVAFLRQHKREKHLIFFSTCA-CVEYYgKGLEGlvKNVKIMCIHGKMKHK-RN 309
Cdd:PRK11776 214 LPAIEQR-------FYEVSP-DERLPALQRLLLHHQPESCVVFCNTKKeCQEVA-DALNA--QGFSALALHGDLEQRdRD 282

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 310 KIFTDFRQLESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFLLPMEESYVNFLSINQK 389
Cdd:PRK11776 283 QVLVRFANRSCSVLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQRANAIEDYLG 362

                        410       420
                 ....*....|....*....|....
gi 556954799 390 CPMQ-EMKPLKDSVDVLPKLKSMA 412
Cdd:PRK11776 363 RKLNwEPLPSLSPLSGVPLLPEMV 386
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 34-213 7.05e-51

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: 172.81  E-value: 7.05e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799   34 TPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKkmqvgAIIITPTRELAIQINEVLTHFNKHFPqF 113
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPQ-----ALVLAPTRELAEQIYEELKKLGKGLG-L 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  114 RQILLIGGSNPIEDVEKFKehGGNIIIATPGRLEDMFRRKADgldlatcVKTLDVLVLDEADRLLDMGFEASLNTILGYL 193
Cdd:pfam00270  75 KVASLLGGDSRKEQLEKLK--GPDILVGTPGRLLDLLQERKL-------LKNLKLLVLDEAHRLLDMGFGPDLEEILRRL 145

                         170       180
                  ....*....|....*....|
gi 556954799  194 PKQRRTGLFSATQTQEVENL 213
Cdd:pfam00270 146 PKKRQILLLSATLPRNLEDL 165
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 243-373 1.21e-48

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: 165.37  E-value: 1.21e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 243 LKNYYMICRTDEKFNQLVA-FLRQHKREKHLIFFSTCACVEYYGKGLEGLvkNVKIMCIHGKMKHK-RNKIFTDFRQLES 320
Cdd:cd18787    1 IKQLYVVVEEEEKKLLLLLlLLEKLKPGKAIIFVNTKKRVDRLAELLEEL--GIKVAALHGDLSQEeRERALKKFRSGKV 78

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 556954799 321 GILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFL 373
Cdd:cd18787   79 RVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DEXDc smart00487
DEAD-like helicases superfamily;
25-229 2.68e-44

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 156.50  E-value: 2.68e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799    25 LKELKFTHMTPVQSATIP-LFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKlkkmqvGAIIITPTRELAIQINEVL 103
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEaLLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGG------RVLVLVPTRELAEQWAEEL 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799   104 THFNKHFPqFRQILLIGGSNPIEDVEKFKEHGGNIIIATPGRLEDMFRRKADGLdlatcvKTLDVLVLDEADRLLDMGFE 183
Cdd:smart00487  75 KKLGPSLG-LKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKLSL------SNVDLVILDEAHRLLDGGFG 147

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*.
gi 556954799   184 ASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRITVKEK 229
Cdd:smart00487 148 DQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFLNDPVFIDVGFT 193
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 254-364 7.64e-28

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: 107.68  E-value: 7.64e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  254 EKFNQLVAFLRQHKREKHLIFFSTCACVEYygkGLEGLVKNVKIMCIHGKMKHK-RNKIFTDFRQLESGILVCTDVMARG 332
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLEA---ELLLEKEGIKVARLHGDLSQEeREEILEDFRKGKIDVLVATDVAERG 77

                          90       100       110
                  ....*....|....*....|....*....|..
gi 556954799  333 IDIPEVNWVLQYDPPSSASAFVHRCGRTARIG 364
Cdd:pfam00271  78 LDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
HELICc smart00490
helicase superfamily c-terminal domain;
293-364 2.38e-23

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 93.82  E-value: 2.38e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 556954799   293 KNVKIMCIHGKMKHK-RNKIFTDFRQLESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIG 364
Cdd:smart00490  10 LGIKVARLHGGLSQEeREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 406-463 4.34e-19

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 80.90  E-value: 4.34e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 556954799  406 PKLKSMAMCDRAVFEKGMRAFVSFVQAYAKHECSLIFRLKDLNFASLARGFALLKMPK 463
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAPK 59
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
306-364 3.92e-08

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


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 56.28  E-value: 3.92e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 556954799 306 HKRNKIFTDFRQLESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIG 364
Cdd:COG1111  398 KEQIEILERFRAGEFNVLVATSVAEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGRKR 456
mfd TIGR00580
transcription-repair coupling factor (mfd); All proteins in this family for which functions ...
 281-339 8.72e-06

transcription-repair coupling factor (mfd); All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273152 [Multi-domain]  Cd Length: 926  Bit Score: 48.89  E-value: 8.72e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  281 VEYYGKGLEGLVKNVKIMCIHGKM-KHKRNKIFTDFRQLESGILVCTDVMARGIDIPEVN 339
Cdd:TIGR00580 673 IEKLATQLRELVPEARIAIAHGQMtENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNAN 732
PRK13766 PRK13766
Hef nuclease; Provisional
 315-362 3.31e-05

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 46.79  E-value: 3.31e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 556954799 315 FRQLESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTAR 362
Cdd:PRK13766 419 FRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPVPSEIRSIQRKGRTGR 466
 
Name Accession Description Interval E-value
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 21-225 1.15e-124

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: 365.36  E-value: 1.15e-124
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKKMQVGAIIITPTRELAIQIN 100
Cdd:cd17960    1 ILDVVAELGFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLEILLKRKANLKKGQVGALIISPTRELATQIY 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 101 EVLTHF-NKHFPQFRQILLIGGSNPIEDVEKFKEHGGNIIIATPGRLEDMFRRKADgldlATCVKTLDVLVLDEADRLLD 179
Cdd:cd17960   81 EVLQSFlEHHLPKLKCQLLIGGTNVEEDVKKFKRNGPNILVGTPGRLEELLSRKAD----KVKVKSLEVLVLDEADRLLD 156

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 556954799 180 MGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIT 225
Cdd:cd17960  157 LGFEADLNRILSKLPKQRRTGLFSATQTDAVEELIKAGLRNPVRVV 202
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
16-400 3.70e-117

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 354.45  E-value: 3.70e-117
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  16 KLNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKlkkmQVGAIIITPTREL 95
Cdd:COG0513    8 GLSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQRLDPSRPR----APQALILAPTREL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  96 AIQINEVLTHFNKHFPqFRQILLIGGSNPIEDVEKFKeHGGNIIIATPGRLEDMFRRKAdgLDLatcvKTLDVLVLDEAD 175
Cdd:COG0513   84 ALQVAEELRKLAKYLG-LRVATVYGGVSIGRQIRALK-RGVDIVVATPGRLLDLIERGA--LDL----SGVETLVLDEAD 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 176 RLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRITVKEKgvaasntQKTPARLKNYYMICRTDEK 255
Cdd:COG0513  156 RMLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPE-------NATAETIEQRYYLVDKRDK 228

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 256 FNQLVAFLRQHKREKHLIFFSTCACVEYYGKGLEGlvKNVKIMCIHGKM-KHKRNKIFTDFRQLESGILVCTDVMARGID 334
Cdd:COG0513  229 LELLRRLLRDEDPERAIVFCNTKRGADRLAEKLQK--RGISAAALHGDLsQGQRERALDAFRNGKIRVLVATDVAARGID 306

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 556954799 335 IPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFLLPMEESYVNFL--SINQKCPMQEMKPLKD 400
Cdd:COG0513  307 IDDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIekLIGQKIEEEELPGFEP 374
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 21-225 2.05e-75

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: 238.50  E-value: 2.05e-75
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKKmQVGAIIITPTRELAIQIN 100
Cdd:cd00268    1 LLKALKKLGFEKPTPIQAQAIPLILSGRDVIGQAQTGSGKTLAFLLPILEKLLPEPKKKGR-GPQALVLAPTRELAMQIA 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 101 EVLTHFNKHfPQFRQILLIGGSNPIEDVEKFKeHGGNIIIATPGRLEDMFRRKAdgLDLatcvKTLDVLVLDEADRLLDM 180
Cdd:cd00268   80 EVARKLGKG-TGLKVAAIYGGAPIKKQIEALK-KGPDIVVGTPGRLLDLIERGK--LDL----SNVKYLVLDEADRMLDM 151

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 556954799 181 GFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIT 225
Cdd:cd00268  152 GFEEDVEKILSALPKDRQTLLFSATLPEEVKELAKKFLKNPVRIE 196
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 5-412 1.57e-66

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 223.91  E-value: 1.57e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799   5 MEEGAWESLPvkLNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILlrredKLKKMQV 84
Cdd:PRK11776   1 MSMTAFSTLP--LPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKL-----DVKRFRV 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  85 GAIIITPTRELAIQI-NE------------VLThfnkhfpqfrqilLIGGSnPIEDVEKFKEHGGNIIIATPGRLEDMFR 151
Cdd:PRK11776  74 QALVLCPTRELADQVaKEirrlarfipnikVLT-------------LCGGV-PMGPQIDSLEHGAHIIVGTPGRILDHLR 139

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 152 RKAdgLDLATcvktLDVLVLDEADRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRITVKEKGV 231
Cdd:PRK11776 140 KGT--LDLDA----LNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTHD 213

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 232 AASNTQKtparlknYYMICRtDEKFNQLVAFLRQHKREKHLIFFSTCA-CVEYYgKGLEGlvKNVKIMCIHGKMKHK-RN 309
Cdd:PRK11776 214 LPAIEQR-------FYEVSP-DERLPALQRLLLHHQPESCVVFCNTKKeCQEVA-DALNA--QGFSALALHGDLEQRdRD 282

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 310 KIFTDFRQLESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFLLPMEESYVNFLSINQK 389
Cdd:PRK11776 283 QVLVRFANRSCSVLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQRANAIEDYLG 362

                        410       420
                 ....*....|....*....|....
gi 556954799 390 CPMQ-EMKPLKDSVDVLPKLKSMA 412
Cdd:PRK11776 363 RKLNwEPLPSLSPLSGVPLLPEMV 386
DEADc_DDX10 cd17941
DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin ...
 24-226 6.34e-65

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: 210.99  E-value: 6.34e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  24 ALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLR----REDKLkkmqvGAIIITPTRELAIQI 99
Cdd:cd17941    4 GLKEAGFIKMTEIQRDSIPHALQGRDILGAAKTGSGKTLAFLVPLLEKLYRerwtPEDGL-----GALIISPTRELAMQI 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 100 NEVLTHFNKHFpQFRQILLIGGSNpiEDVEKFKEHGGNIIIATPGR-LEDMfrRKADGLDLATcvktLDVLVLDEADRLL 178
Cdd:cd17941   79 FEVLRKVGKYH-SFSAGLIIGGKD--VKEEKERINRMNILVCTPGRlLQHM--DETPGFDTSN----LQMLVLDEADRIL 149

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 556954799 179 DMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRITV 226
Cdd:cd17941  150 DMGFKETLDAIVENLPKSRQTLLFSATQTKSVKDLARLSLKNPEYISV 197
DEADc_MSS116 cd17964
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for ...
 17-219 1.03e-63

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: 208.21  E-value: 1.03e-63
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  17 LNENVIQALKELKFTHMTPVQSATI-PLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKKMQVGAIIITPTREL 95
Cdd:cd17964    1 LDPSLLKALTRMGFETMTPVQQKTLkPILSTGDDVLARAKTGTGKTLAFLLPAIQSLLNTKPAGRRSGVSALIISPTREL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  96 AIQI----NEVLThfnkHFPQFRQILLIGGSNPIEDVEKFKEHGGNIIIATPGRLEDMFRRKADGLDLatcvKTLDVLVL 171
Cdd:cd17964   81 ALQIaaeaKKLLQ----GLRKLRVQSAVGGTSRRAELNRLRRGRPDILVATPGRLIDHLENPGVAKAF----TDLDYLVL 152

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 556954799 172 DEADRLLDMGFEASLNTILGYLPK----QRRTGLFSATQTQEVENLVRAGLR 219
Cdd:cd17964  153 DEADRLLDMGFRPDLEQILRHLPEknadPRQTLLFSATVPDEVQQIARLTLK 204
DEADc_DDX27 cd17947
DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ...
 21-224 8.75e-61

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: 200.17  E-value: 8.75e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKKMQVgaIIITPTRELAIQIN 100
Cdd:cd17947    1 LLRALSSLGFTKPTPIQAAAIPLALLGKDICASAVTGSGKTAAFLLPILERLLYRPKKKAATRV--LVLVPTRELAMQCF 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 101 EVLTHFNKhFPQFRQILLIGGSNPiedveKFKEH----GGNIIIATPGRLEDMFRRKAdGLDLatcvKTLDVLVLDEADR 176
Cdd:cd17947   79 SVLQQLAQ-FTDITFALAVGGLSL-----KAQEAalraRPDIVIATPGRLIDHLRNSP-SFDL----DSIEILVLDEADR 147

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 556954799 177 LLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 224
Cdd:cd17947  148 MLEEGFADELKEILRLCPRTRQTMLFSATMTDEVKDLAKLSLNKPVRV 195
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
 17-369 3.92e-59

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 203.64  E-value: 3.92e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  17 LNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILL---RRedklKKMQVGAIIITPTR 93
Cdd:PRK11192   8 LDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLdfpRR----KSGPPRILILTPTR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  94 ELAIQINEVLTHFNKHfpQFRQILLI-GGSNPIEDVEKFKEHGgNIIIATPGRLedMFRRKADGLDLatcvKTLDVLVLD 172
Cdd:PRK11192  84 ELAMQVADQARELAKH--THLDIATItGGVAYMNHAEVFSENQ-DIVVATPGRL--LQYIKEENFDC----RAVETLILD 154

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 173 EADRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQE-VENLVRAGLRNPVRITVKekgvaASNTQKtpARLKNYYMICR 251
Cdd:PRK11192 155 EADRMLDMGFAQDIETIAAETRWRKQTLLFSATLEGDaVQDFAERLLNDPVEVEAE-----PSRRER--KKIHQWYYRAD 227

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 252 TDE-KFNQLVAFLRQHKREKHLIFFSTCACVEYygkgLEGLVKNVKIMC--IHGKM-KHKRNKIFTDFRQLESGILVCTD 327
Cdd:PRK11192 228 DLEhKTALLCHLLKQPEVTRSIVFVRTRERVHE----LAGWLRKAGINCcyLEGEMvQAKRNEAIKRLTDGRVNVLVATD 303

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|..
gi 556954799 328 VMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSA 369
Cdd:PRK11192 304 VAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTA 345
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
 24-221 4.60e-59

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: 195.66  E-value: 4.60e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  24 ALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLrredKLKKMQ---VGAIIITPTRELAIQIN 100
Cdd:cd17942    4 AIEEMGFTKMTEIQAKSIPPLLEGRDVLGAAKTGSGKTLAFLIPAIELLY----KLKFKPrngTGVIIISPTRELALQIY 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 101 EVLTHFNKHFPQFRQILlIGGSNPIEDVEKFKEhGGNIIIATPGRLEDMFRRKADGLdlatcVKTLDVLVLDEADRLLDM 180
Cdd:cd17942   80 GVAKELLKYHSQTFGIV-IGGANRKAEAEKLGK-GVNILVATPGRLLDHLQNTKGFL-----YKNLQCLIIDEADRILEI 152

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 556954799 181 GFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNP 221
Cdd:cd17942  153 GFEEEMRQIIKLLPKRRQTMLFSATQTRKVEDLARISLKKK 193
PTZ00110 PTZ00110
helicase; Provisional
 21-375 6.48e-57

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 200.38  E-value: 6.48e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIP-ILEI----LLRREDklkkmqvGAI--IITPTR 93
Cdd:PTZ00110 141 ILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPaIVHInaqpLLRYGD-------GPIvlVLAPTR 213

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  94 ELAIQINEVLTHFNKHFpQFRQILLIGGSnPIEDVEKFKEHGGNIIIATPGRLEDMFRRKADGLDLATcvktldVLVLDE 173
Cdd:PTZ00110 214 ELAEQIREQCNKFGASS-KIRNTVAYGGV-PKRGQIYALRRGVEILIACPGRLIDFLESNVTNLRRVT------YLVLDE 285

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 174 ADRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRN-PVRITVkekgvaASNTQKTPARLKNYYMICRT 252
Cdd:PTZ00110 286 ADRMLDMGFEPQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEePVHVNV------GSLDLTACHNIKQEVFVVEE 359

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 253 DEKFNQLVAFLRQHKRE--KHLIFFSTcacveyyGKGLEGLVKNVKI-----MCIHG-KMKHKRNKIFTDFRQLESGILV 324
Cdd:PTZ00110 360 HEKRGKLKMLLQRIMRDgdKILIFVET-------KKGADFLTKELRLdgwpaLCIHGdKKQEERTWVLNEFKTGKSPIMI 432

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|.
gi 556954799 325 CTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFLLP 375
Cdd:PTZ00110 433 ATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLTP 483
PRK10590 PRK10590
ATP-dependent RNA helicase RhlE; Provisional
 17-370 3.67e-56

ATP-dependent RNA helicase RhlE; Provisional


Pssm-ID: 236722 [Multi-domain]  Cd Length: 456  Bit Score: 196.18  E-value: 3.67e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  17 LNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLK-KMQVGAIIITPTREL 95
Cdd:PRK10590   8 LSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKgRRPVRALILTPTREL 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  96 AIQINEVLTHFNKHFPqFRQILLIGGS--NPiedvEKFKEHGG-NIIIATPGRLEDMFRRKADGLDlatcvkTLDVLVLD 172
Cdd:PRK10590  88 AAQIGENVRDYSKYLN-IRSLVVFGGVsiNP----QMMKLRGGvDVLVATPGRLLDLEHQNAVKLD------QVEILVLD 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 173 EADRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRITVKEKGVAASN-TQ------KTPARLKN 245
Cdd:PRK10590 157 EADRMLDMGFIHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQvTQhvhfvdKKRKRELL 236

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 246 YYMICRTDekFNQLVAFLRQHKREKHLIffstcacveyygkglEGLVKN-VKIMCIHG-KMKHKRNKIFTDFRQLESGIL 323
Cdd:PRK10590 237 SQMIGKGN--WQQVLVFTRTKHGANHLA---------------EQLNKDgIRSAAIHGnKSQGARTRALADFKSGDIRVL 299

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*..
gi 556954799 324 VCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSAL 370
Cdd:PRK10590 300 VATDIAARGLDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEAL 346
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
 17-393 4.76e-56

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 198.64  E-value: 4.76e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  17 LNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRRE---DKlKKMQVGAIIITPTR 93
Cdd:PRK04537  16 LHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPalaDR-KPEDPRALILAPTR 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  94 ELAIQINEVLTHFNKHFpQFRQILLIGGSnpieDVEKFKE---HGGNIIIATPGRLEDmFRRKADGLDLATCvktlDVLV 170
Cdd:PRK04537  95 ELAIQIHKDAVKFGADL-GLRFALVYGGV----DYDKQREllqQGVDVIIATPGRLID-YVKQHKVVSLHAC----EICV 164

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 171 LDEADRLLDMGFEASLNTILGYLPKQ--RRTGLFSATQTQEVENLVRAGLRNPVRITVKEKGVaasntqkTPARLKNYYM 248
Cdd:PRK04537 165 LDEADRMFDLGFIKDIRFLLRRMPERgtRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETI-------TAARVRQRIY 237

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 249 ICRTDEKFNQLVAFLRQHKREKHLIFFSTCACVEYYGKGLEGlvKNVKIMCIHGKM-KHKRNKIFTDFRQLESGILVCTD 327
Cdd:PRK04537 238 FPADEEKQTLLLGLLSRSEGARTMVFVNTKAFVERVARTLER--HGYRVGVLSGDVpQKKRESLLNRFQKGQLEILVATD 315

                        330       340       350       360       370       380       390
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 556954799 328 VMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFL-------LPMEESYvnflsINQKCPMQ 393
Cdd:PRK04537 316 VAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAISFAceryamsLPDIEAY-----IEQKIPVE 383
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 17-224 4.98e-54

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: 182.52  E-value: 4.98e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  17 LNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKkmqvgAIIITPTRELA 96
Cdd:cd17954    7 VCEELCEACEKLGWKKPTKIQEEAIPVALQGRDIIGLAETGSGKTAAFALPILQALLENPQRFF-----ALVLAPTRELA 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  97 IQINEVLTHFNKHfPQFRQILLIGGSNPIEDVEKF--KEHggnIIIATPGRLEDMFRRkADGLDLatcvKTLDVLVLDEA 174
Cdd:cd17954   82 QQISEQFEALGSS-IGLKSAVLVGGMDMMAQAIALakKPH---VIVATPGRLVDHLEN-TKGFSL----KSLKFLVMDEA 152

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 556954799 175 DRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 224
Cdd:cd17954  153 DRLLNMDFEPEIDKILKVIPRERTTYLFSATMTTKVAKLQRASLKNPVKI 202
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 4-373 2.79e-53

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 188.97  E-value: 2.79e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799   4 EMEEGAWESLPVKLNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKKM- 82
Cdd:PRK01297  81 EPQEGKTRFHDFNLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYm 160

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  83 -QVGAIIITPTRELAIQINEVLTHFNKhFPQFRQILLIGGSNPIEDVEKFKEHGGNIIIATPGRLEDMFRRKADGLDLat 161
Cdd:PRK01297 161 gEPRALIIAPTRELVVQIAKDAAALTK-YTGLNVMTFVGGMDFDKQLKQLEARFCDILVATPGRLLDFNQRGEVHLDM-- 237

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 162 cvktLDVLVLDEADRLLDMGFEASLNTILGYLPK--QRRTGLFSATQTQEVENLVRAGLRNPVRITVKEKGVAASNTQKt 239
Cdd:PRK01297 238 ----VEVMVLDEADRMLDMGFIPQVRQIIRQTPRkeERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQ- 312

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 240 parlkNYYMICRTDeKFNQLVAFLRQHKREKHLIFFSTCACVEyygKGLEGLVKN-VKIMCIHGKM-KHKRNKIFTDFRQ 317
Cdd:PRK01297 313 -----HVYAVAGSD-KYKLLYNLVTQNPWERVMVFANRKDEVR---RIEERLVKDgINAAQLSGDVpQHKRIKTLEGFRE 383

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 556954799 318 LESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFL 373
Cdd:PRK01297 384 GKIRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISFA 439
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
 17-382 6.93e-52

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 183.63  E-value: 6.93e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  17 LNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRRE--DKLKKMQVGAIIITPTRE 94
Cdd:PRK04837  15 LHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPapEDRKVNQPRALIMAPTRE 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  95 LAIQINEVLTHFNKHfPQFRQILLIGGsnpiEDVEKFK---EHGGNIIIATPGRLEDMFRRKADGLDlatcvkTLDVLVL 171
Cdd:PRK04837  95 LAVQIHADAEPLAQA-TGLKLGLAYGG----DGYDKQLkvlESGVDILIGTTGRLIDYAKQNHINLG------AIQVVVL 163

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 172 DEADRLLDMGFEASLNTILGYLP--KQRRTGLFSATQTQEVENLVRAGLRNPVRITVKEKgvaasntQKTPARLKNYYMI 249
Cdd:PRK04837 164 DEADRMFDLGFIKDIRWLFRRMPpaNQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPE-------QKTGHRIKEELFY 236

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 250 CRTDEKFNQLVAFLRQHKREKHLIFFST-CACVEYYGKgLEG-------LVKNVkimcihgkMKHKRNKIFTDFRQLESG 321
Cdd:PRK04837 237 PSNEEKMRLLQTLIEEEWPDRAIIFANTkHRCEEIWGH-LAAdghrvglLTGDV--------AQKKRLRILEEFTRGDLD 307

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 556954799 322 ILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFL-------LPMEESYVN 382
Cdd:PRK04837 308 ILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSISLAceeyalnLPAIETYIG 375
PTZ00424 PTZ00424
helicase 45; Provisional
 15-377 5.36e-51

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 180.79  E-value: 5.36e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  15 VKLNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILlrrEDKLKKMQVgaIIITPTRE 94
Cdd:PTZ00424  33 LKLNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLI---DYDLNACQA--LILAPTRE 107

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  95 LAIQINEVLTHFNKhFPQFRQILLIGGSNPIEDVEKFKEhGGNIIIATPGRLEDMFRRKADGLDlatcvkTLDVLVLDEA 174
Cdd:PTZ00424 108 LAQQIQKVVLALGD-YLKVRCHACVGGTVVRDDINKLKA-GVHMVVGTPGRVYDMIDKRHLRVD------DLKLFILDEA 179

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 175 DRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRITVKekgvaasNTQKTPARLKNYYMICRTDE 254
Cdd:PTZ00424 180 DEMLSRGFKGQIYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVK-------KDELTLEGIRQFYVAVEKEE 252

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 255 -KFNQLVAFLRQHKREKHLIFFSTCACVEYYGKGLEGlvKNVKIMCIHGKMKHK-RNKIFTDFRQLESGILVCTDVMARG 332
Cdd:PTZ00424 253 wKFDTLCDLYETLTITQAIIYCNTRRKVDYLTKKMHE--RDFTVSCMHGDMDQKdRDLIMREFRSGSTRVLITTDLLARG 330

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*
gi 556954799 333 IDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFLLPME 377
Cdd:PTZ00424 331 IDVQQVSLVINYDLPASPENYIHRIGRSGRFGRKGVAINFVTPDD 375
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 34-213 7.05e-51

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: 172.81  E-value: 7.05e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799   34 TPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKkmqvgAIIITPTRELAIQINEVLTHFNKHFPqF 113
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPQ-----ALVLAPTRELAEQIYEELKKLGKGLG-L 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  114 RQILLIGGSNPIEDVEKFKehGGNIIIATPGRLEDMFRRKADgldlatcVKTLDVLVLDEADRLLDMGFEASLNTILGYL 193
Cdd:pfam00270  75 KVASLLGGDSRKEQLEKLK--GPDILVGTPGRLLDLLQERKL-------LKNLKLLVLDEAHRLLDMGFGPDLEEILRRL 145

                         170       180
                  ....*....|....*....|
gi 556954799  194 PKQRRTGLFSATQTQEVENL 213
Cdd:pfam00270 146 PKKRQILLLSATLPRNLEDL 165
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
 17-373 1.16e-50

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 185.05  E-value: 1.16e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  17 LNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILlrrEDKLKKMQVgaIIITPTRELA 96
Cdd:PRK11634  13 LKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNL---DPELKAPQI--LVLAPTRELA 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  97 IQINEVLTHFNKHFPQFRQILLIGGSNpiEDVE-KFKEHGGNIIIATPGRLEDMFRRKAdgLDLATcvktLDVLVLDEAD 175
Cdd:PRK11634  88 VQVAEAMTDFSKHMRGVNVVALYGGQR--YDVQlRALRQGPQIVVGTPGRLLDHLKRGT--LDLSK----LSGLVLDEAD 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 176 RLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNP--VRITvkekgvaaSNTQKTPARLKNYYMI--CR 251
Cdd:PRK11634 160 EMLRMGFIEDVETIMAQIPEGHQTALFSATMPEAIRRITRRFMKEPqeVRIQ--------SSVTTRPDISQSYWTVwgMR 231

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 252 TDEKfnqLVAFLRQHKREKHLIFFSTCACVEYYGKGLEGLVKNVKimCIHGKMKHK-RNKIFTDFRQLESGILVCTDVMA 330
Cdd:PRK11634 232 KNEA---LVRFLEAEDFDAAIIFVRTKNATLEVAEALERNGYNSA--ALNGDMNQAlREQTLERLKDGRLDILIATDVAA 306

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|...
gi 556954799 331 RGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFL 373
Cdd:PRK11634 307 RGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALLFV 349
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 8-224 8.56e-50

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: 171.33  E-value: 8.56e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799   8 GAWESLpvKLNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREdklKKMQVGAI 87
Cdd:cd17959    1 GGFQSM--GLSPPLLRAIKKKGYKVPTPIQRKTIPLILDGRDVVAMARTGSGKTAAFLIPMIEKLKAHS---PTVGARAL 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  88 IITPTRELAIQINEVLTHFNKhFPQFRQILLIGGSNpIEDveKFKEHGGN--IIIATPGRLedMFRRKADGLDLatcvKT 165
Cdd:cd17959   76 ILSPTRELALQTLKVTKELGK-FTDLRTALLVGGDS-LEE--QFEALASNpdIIIATPGRL--LHLLVEMNLKL----SS 145

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 556954799 166 LDVLVLDEADRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 224
Cdd:cd17959  146 VEYVVFDEADRLFEMGFAEQLHEILSRLPENRQTLLFSATLPKLLVEFAKAGLNEPVLI 204
DEADc_DDX49 cd17955
DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the ...
 11-222 4.19e-49

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: 169.33  E-value: 4.19e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  11 ESLPvkLNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILlrREDKlkkMQVGAIIIT 90
Cdd:cd17955    2 EDLG--LSSWLVKQCASLGIKEPTPIQKLCIPEILAGRDVIGGAKTGSGKTAAFALPILQRL--SEDP---YGIFALVLT 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  91 PTRELAIQINEVLTHFNKhFPQFRQILLIGGSNPIEDVEKF--KEHggnIIIATPGRLEDMFRrkaDGLDLATCVKTLDV 168
Cdd:cd17955   75 PTRELAYQIAEQFRALGA-PLGLRCCVIVGGMDMVKQALELskRPH---IVVATPGRLADHLR---SSDDTTKVLSRVKF 147

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 556954799 169 LVLDEADRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPV 222
Cdd:cd17955  148 LVLDEADRLLTGSFEDDLATILSALPPKRQTLLFSATLTDALKALKELFGNKPF 201
DEADc_DDX23 cd17945
DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and ...
 21-225 1.00e-48

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: 169.04  E-value: 1.00e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLR--REDKLKKMQvG--AIIITPTRELA 96
Cdd:cd17945    1 LLRVIRKLGYKEPTPIQRQAIPIGLQNRDIIGIAETGSGKTAAFLIPLLVYISRlpPLDEETKDD-GpyALILAPTRELA 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  97 IQINEVLTHFNKHFPqFRQILLIGGSNpIEDVEKFKEHGGNIIIATPGRLEDMFRRKAdgLDLATCvktlDVLVLDEADR 176
Cdd:cd17945   80 QQIEEETQKFAKPLG-IRVVSIVGGHS-IEEQAFSLRNGCEILIATPGRLLDCLERRL--LVLNQC----TYVVLDEADR 151

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 556954799 177 LLDMGFEASLNTILGYLP--------------------KQRRTGLFSATQTQEVENLVRAGLRNPVRIT 225
Cdd:cd17945  152 MIDMGFEPQVTKILDAMPvsnkkpdteeaeklaasgkhRYRQTMMFTATMPPAVEKIAKGYLRRPVVVT 220
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 243-373 1.21e-48

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: 165.37  E-value: 1.21e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 243 LKNYYMICRTDEKFNQLVA-FLRQHKREKHLIFFSTCACVEYYGKGLEGLvkNVKIMCIHGKMKHK-RNKIFTDFRQLES 320
Cdd:cd18787    1 IKQLYVVVEEEEKKLLLLLlLLEKLKPGKAIIFVNTKKRVDRLAELLEEL--GIKVAALHGDLSQEeRERALKKFRSGKV 78

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 556954799 321 GILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFL 373
Cdd:cd18787   79 RVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DEADc_DDX31 cd17949
DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) ...
 21-225 9.95e-48

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: 166.22  E-value: 9.95e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKE-LKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKKmQVG--AIIITPTRELAI 97
Cdd:cd17949    1 LVSHLKSkMGIEKPTAIQKLAIPVLLQGRDVLVRSQTGSGKTLAYLLPIIQRLLSLEPRVDR-SDGtlALVLVPTRELAL 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  98 QINEVLTHFNKHFPQFRQILLIGGSNpiedveKFKE-----HGGNIIIATPGRLedmfrrkADGLDLATCVKTLDV--LV 170
Cdd:cd17949   80 QIYEVLEKLLKPFHWIVPGYLIGGEK------RKSEkarlrKGVNILIATPGRL-------LDHLKNTQSFDVSNLrwLV 146

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 556954799 171 LDEADRLLDMGFEASLNTILGYL-------------PKQRRTGLFSATQTQEVENLVRAGLRNPVRIT 225
Cdd:cd17949  147 LDEADRLLDMGFEKDITKILELLddkrskaggekskPSRRQTVLVSATLTDGVKRLAGLSLKDPVYID 214
DEADc_DDX41 cd17951
DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts ...
 21-224 4.27e-47

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: 4.27e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKKMQVG---AIIITPTRELAI 97
Cdd:cd17951    1 ILKGLKKKGIKKPTPIQMQGLPTILSGRDMIGIAFTGSGKTLVFTLPLIMFALEQEKKLPFIKGEgpyGLIVCPSRELAR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  98 QINEVLTHFNKH-----FPQFRQILLIGGSNPIEDVEKFKeHGGNIIIATPGRLEDMFRRKADGLDLatCvktlDVLVLD 172
Cdd:cd17951   81 QTHEVIEYYCKAlqeggYPQLRCLLCIGGMSVKEQLEVIR-KGVHIVVATPGRLMDMLNKKKINLDI--C----RYLCLD 153

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 556954799 173 EADRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 224
Cdd:cd17951  154 EADRMIDMGFEEDIRTIFSYFKGQRQTLLFSATMPKKIQNFAKSALVKPVTV 205
DEADc_DDX3_DDX4 cd17967
DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes ...
 13-226 2.78e-45

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: 159.57  E-value: 2.78e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  13 LPVKLNENVIQAlkelKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKL-----KKMQVGAI 87
Cdd:cd17967    7 LRELLLENIKRA----GYTKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPIISKLLEDGPPSvgrgrRKAYPSAL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  88 IITPTRELAIQINEVLTHFNKHFPqFRQILLIGGSNPIEDVEKFKEhGGNIIIATPGRLEDMFRRKADGLDlatCVKtld 167
Cdd:cd17967   83 ILAPTRELAIQIYEEARKFSYRSG-VRSVVVYGGADVVHQQLQLLR-GCDILVATPGRLVDFIERGRISLS---SIK--- 154

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 556954799 168 VLVLDEADRLLDMGFEASLNTILGY--LPK--QRRTGLFSATQTQEVENLVRAGLRNPVRITV 226
Cdd:cd17967  155 FLVLDEADRMLDMGFEPQIRKIVEHpdMPPkgERQTLMFSATFPREIQRLAADFLKNYIFLTV 217
DEADc_DDX42 cd17952
DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor ...
 21-225 2.38e-44

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: 156.42  E-value: 2.38e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIP-ILEILLRREDKLKKMQVGaIIITPTRELAIQI 99
Cdd:cd17952    1 LLNAIRKQEYEQPTPIQAQALPVALSGRDMIGIAKTGSGKTAAFIWPmLVHIMDQRELEKGEGPIA-VIVAPTRELAQQI 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 100 NEVLTHFNKHFpQFRQILLIGGSNPIEDVEKFKEhGGNIIIATPGRLEDMFRRKADGLDLATcvktldVLVLDEADRLLD 179
Cdd:cd17952   80 YLEAKKFGKAY-NLRVVAVYGGGSKWEQAKALQE-GAEIVVATPGRLIDMVKKKATNLQRVT------YLVLDEADRMFD 151

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 556954799 180 MGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIT 225
Cdd:cd17952  152 MGFEYQVRSIVGHVRPDRQTLLFSATFKKKIEQLARDILSDPIRVV 197
DEXDc smart00487
DEAD-like helicases superfamily;
25-229 2.68e-44

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 156.50  E-value: 2.68e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799    25 LKELKFTHMTPVQSATIP-LFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKlkkmqvGAIIITPTRELAIQINEVL 103
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEaLLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGG------RVLVLVPTRELAEQWAEEL 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799   104 THFNKHFPqFRQILLIGGSNPIEDVEKFKEHGGNIIIATPGRLEDMFRRKADGLdlatcvKTLDVLVLDEADRLLDMGFE 183
Cdd:smart00487  75 KKLGPSLG-LKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKLSL------SNVDLVILDEAHRLLDGGFG 147

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*.
gi 556954799   184 ASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRITVKEK 229
Cdd:smart00487 148 DQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFLNDPVFIDVGFT 193
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
 17-226 2.91e-44

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: 156.59  E-value: 2.91e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  17 LNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKKMQ-VGAIIITPTREL 95
Cdd:cd17961    1 LDPRLLKAIAKLGWEKPTLIQSKAIPLALEGKDILARARTGSGKTAAYALPIIQKILKAKAESGEEQgTRALILVPTREL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  96 AIQINEVLTHFNKHFPQFRQILLIGGSNPIEDVEKFKEHGGNIIIATPGRLEDMFRRKADGLdlatcVKTLDVLVLDEAD 175
Cdd:cd17961   81 AQQVSKVLEQLTAYCRKDVRVVNLSASSSDSVQRALLAEKPDIVVSTPARLLSHLESGSLLL-----LSTLKYLVIDEAD 155

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 556954799 176 RLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRITV 226
Cdd:cd17961  156 LVLSYGYEEDLKSLLSYLPKNYQTFLMSATLSEDVEALKKLVLHNPAILKL 206
DEADc_DDX52 cd17957
DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ...
 21-226 2.64e-43

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: 153.51  E-value: 2.64e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREdklKKMQVGAIIITPTRELAIQIN 100
Cdd:cd17957    1 LLNNLEESGYREPTPIQMQAIPILLHGRDLLACAPTGSGKTLAFLIPILQKLGKPR---KKKGLRALILAPTRELASQIY 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 101 EVLTHFNKHFPqFRQILLIGGSNPIEDVEKFKEHGGNIIIATPGRLEDMFRRKAdgLDLAtcvkTLDVLVLDEADRLLDM 180
Cdd:cd17957   78 RELLKLSKGTG-LRIVLLSKSLEAKAKDGPKSITKYDILVSTPLRLVFLLKQGP--IDLS----SVEYLVLDEADKLFEP 150

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 556954799 181 GFEASLNTILGYLP-KQRRTGLFSATQTQEVENLVRAGLRNPVRITV 226
Cdd:cd17957  151 GFREQTDEILAACTnPNLQRSLFSATIPSEVEELARSVMKDPIRIIV 197
DEADc_DDX46 cd17953
DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) ...
 17-225 1.67e-42

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: 152.15  E-value: 1.67e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  17 LNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPIL-EILLRREDKLKKMQVGaIIITPTREL 95
Cdd:cd17953   19 LSEKVLDLIKKLGYEKPTPIQAQALPAIMSGRDVIGIAKTGSGKTLAFLLPMFrHIKDQRPVKPGEGPIG-LIMAPTREL 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  96 AIQINEVLTHFNKHFpQFRQILLIGGSNPIEDVEKFKEhGGNIIIATPGRLEDMFRRKADGLdlaTCVKTLDVLVLDEAD 175
Cdd:cd17953   98 ALQIYVECKKFSKAL-GLRVVCVYGGSGISEQIAELKR-GAEIVVCTPGRMIDILTANNGRV---TNLRRVTYVVLDEAD 172

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 556954799 176 RLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIT 225
Cdd:cd17953  173 RMFDMGFEPQIMKIVNNIRPDRQTVLFSATFPRKVEALARKVLHKPIEIT 222
DEADc_DDX6 cd17940
DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or ...
 10-224 1.24e-41

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: 148.99  E-value: 1.24e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  10 WESLpvKLNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILlrredKLKKMQVGAIII 89
Cdd:cd17940    1 FEDY--GLKRELLMGIFEKGFEKPSPIQEESIPIALSGRDILARAKNGTGKTGAYLIPILEKI-----DPKKDVIQALIL 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  90 TPTRELAIQINEVLTHFNKHfPQFRQILLIGGSNPIEDVEKFKEhGGNIIIATPGRLEDMFRRKAdgLDLATCVktldVL 169
Cdd:cd17940   74 VPTRELALQTSQVCKELGKH-MGVKVMVTTGGTSLRDDIMRLYQ-TVHVLVGTPGRILDLAKKGV--ADLSHCK----TL 145

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 556954799 170 VLDEADRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 224
Cdd:cd17940  146 VLDEADKLLSQDFQPIIEKILNFLPKERQILLFSATFPLTVKNFMDRHMHNPYEI 200
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
 13-373 3.44e-41

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 156.49  E-value: 3.44e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  13 LPVKLNENVIQALKELKfthmTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILE--ILLRREDKLKKMQVGAIIIT 90
Cdd:PLN00206 128 LPPKLLLNLETAGYEFP----TPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISrcCTIRSGHPSEQRNPLAMVLT 203

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  91 PTRELAIQINEVLTHFNKHFPqFRQILLIGGSNPIEDVEKFKEhGGNIIIATPGRLEDMFRRKADGLDlatcvkTLDVLV 170
Cdd:PLN00206 204 PTRELCVQVEDQAKVLGKGLP-FKTALVVGGDAMPQQLYRIQQ-GVELIVGTPGRLIDLLSKHDIELD------NVSVLV 275

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 171 LDEADRLLDMGFEASLNTILGYLPkQRRTGLFSATQTQEVENLVRAGLRNPVRITVkekgvaaSNTQKTPARLKNYYMIC 250
Cdd:PLN00206 276 LDEVDCMLERGFRDQVMQIFQALS-QPQVLLFSATVSPEVEKFASSLAKDIILISI-------GNPNRPNKAVKQLAIWV 347

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 251 RTDEKFNQLVAFL--RQHKREKHLIFFSTCACVEYYGKGLEgLVKNVKIMCIHGK--MKHKRnKIFTDFRQLESGILVCT 326
Cdd:PLN00206 348 ETKQKKQKLFDILksKQHFKPPAVVFVSSRLGADLLANAIT-VVTGLKALSIHGEksMKERR-EVMKSFLVGEVPVIVAT 425

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*..
gi 556954799 327 DVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFL 373
Cdd:PLN00206 426 GVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFV 472
DEADc_DDX1 cd17938
DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ...
 21-222 3.95e-40

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: 145.16  E-value: 3.95e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEIllrredklkkmqVGAIIITPTRELAIQIN 100
Cdd:cd17938   10 LIKAVEELDWLLPTDIQAEAIPLILGGGDVLMAAETGSGKTGAFCLPVLQI------------VVALILEPSRELAEQTY 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 101 EVLTHFNKHF--PQFRQILLIGGSNpIEDVEKFKEHGGNIIIATPGRLEDMFrrKADGLDLATCvktlDVLVLDEADRLL 178
Cdd:cd17938   78 NCIENFKKYLdnPKLRVALLIGGVK-AREQLKRLESGVDIVVGTPGRLEDLI--KTGKLDLSSV----RFFVLDEADRLL 150

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 556954799 179 DMGFEASLNTILGYLPKQRRTG------LFSAT-QTQEVENLVRAGLRNPV 222
Cdd:cd17938  151 SQGNLETINRIYNRIPKITSDGkrlqviVCSATlHSFEVKKLADKIMHFPT 201
DEADc_DDX24 cd17946
DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box ...
 21-238 1.02e-39

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: 145.07  E-value: 1.02e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFM-NNKDVAAEAVTGSGKTLAFVIPILEILL----RREDKLKKMQVGAIIITPTREL 95
Cdd:cd17946    1 ILRALADLGFSEPTPIQALALPAAIrDGKDVIGAAETGSGKTLAFGIPILERLLsqksSNGVGGKQKPLRALILTPTREL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  96 AIQINEVLTHFNKHfPQFRQILLIGGSNpIEDVEKFKEHGGNIIIATPGRLEDMFrrkADGLDLATCVKTLDVLVLDEAD 175
Cdd:cd17946   81 AVQVKDHLKAIAKY-TNIKIASIVGGLA-VQKQERLLKKRPEIVVATPGRLWELI---QEGNEHLANLKSLRFLVLDEAD 155

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 176 RLLDMGFEASLNTILGYLP-------KQRRTGLFSATQTQEvenlvragLRNPVRITVKEKGVAASNTQK 238
Cdd:cd17946  156 RMLEKGHFAELEKILELLNkdragkkRKRQTFVFSATLTLD--------HQLPLKLNSKKKKKKKEKKQK 217
DEADc_DDX5_DDX17 cd17966
DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are ...
 21-225 1.04e-39

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: 143.66  E-value: 1.04e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIP-ILEI----LLRREDklkkmqvGAI--IITPTR 93
Cdd:cd17966    1 VMDELKRQGFTEPTAIQAQGWPMALSGRDMVGIAQTGSGKTLAFLLPaIVHInaqpPLERGD-------GPIvlVLAPTR 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  94 ELAIQINEVLTHFNKHFpQFRQILLIGG---SNPIEDVEKfkehGGNIIIATPGRLEDMfrrkadgLDLA-TCVKTLDVL 169
Cdd:cd17966   74 ELAQQIQQEANKFGGSS-RLRNTCVYGGapkGPQIRDLRR----GVEICIATPGRLIDF-------LDQGkTNLRRVTYL 141

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 556954799 170 VLDEADRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIT 225
Cdd:cd17966  142 VLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRRLAEDFLKDYIQVN 197
DEADc_EIF4A cd17939
DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation ...
 17-224 6.76e-39

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: 141.69  E-value: 6.76e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  17 LNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKkmqvgAIIITPTRELA 96
Cdd:cd17939    4 LSEDLLRGIYAYGFEKPSAIQQRAIVPIIKGRDVIAQAQSGTGKTATFSIGALQRIDTTVRETQ-----ALVLAPTRELA 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  97 IQINEVLTHFNKHFPQFRQiLLIGGSNPIEDVEKFKEhGGNIIIATPGRLEDMFRRKAdgldlaTCVKTLDVLVLDEADR 176
Cdd:cd17939   79 QQIQKVVKALGDYMGVKVH-ACIGGTSVREDRRKLQY-GPHIVVGTPGRVFDMLQRRS------LRTDKIKMFVLDEADE 150

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 556954799 177 LLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 224
Cdd:cd17939  151 MLSRGFKDQIYDIFQFLPPETQVVLFSATMPHEVLEVTKKFMRDPVRI 198
DEADc_DDX20 cd17943
DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, ...
 21-224 8.54e-39

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: 141.25  E-value: 8.54e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRRedklkKMQVGAIIITPTRELAIQIN 100
Cdd:cd17943    1 VLEGLKAAGFQRPSPIQLAAIPLGLAGHDLIVQAKSGTGKTLVFVVIALESLDLE-----RRHPQVLILAPTREIAVQIH 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 101 EVLTHFNKHFPQFRQILLIGGSNPIEDVEKFKehGGNIIIATPGRLEDMFrrKADGLDlatcVKTLDVLVLDEADRLLDM 180
Cdd:cd17943   76 DVFKKIGKKLEGLKCEVFIGGTPVKEDKKKLK--GCHIAVGTPGRIKQLI--ELGALN----VSHVRLFVLDEADKLMEG 147

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 556954799 181 GFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 224
Cdd:cd17943  148 SFQKDVNWIFSSLPKNKQVIAFSATYPKNLDNLLARYMRKPVLV 191
DEADc_DDX4 cd18052
DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA ...
 17-219 3.77e-37

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: 138.95  E-value: 3.77e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  17 LNENVIQAlkelKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRR------EDKLKKMQvgAIIIT 90
Cdd:cd18052   54 LLKNIRKA----GYEKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPVLTGMMKEgltassFSEVQEPQ--ALIVA 127

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  91 PTRELAIQINEVLTHFNKHFPqFRQILLIGGSNP---IEDVEKfkehGGNIIIATPGRLEDMFRRKADGLdlatcvKTLD 167
Cdd:cd18052  128 PTRELANQIFLEARKFSYGTC-IRPVVVYGGVSVghqIRQIEK----GCHILVATPGRLLDFIGRGKISL------SKLK 196

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 556954799 168 VLVLDEADRLLDMGFEASLNTILGYL---PKQRR-TGLFSATQTQEVENLVRAGLR 219
Cdd:cd18052  197 YLILDEADRMLDMGFGPEIRKLVSEPgmpSKEDRqTLMFSATFPEEIQRLAAEFLK 252
DEADc_DDX43_DDX53 cd17958
DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis ...
 21-225 8.37e-36

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: 132.97  E-value: 8.37e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIP-ILEILLRREDKLKKMQVGAIIITPTRELAIQI 99
Cdd:cd17958    1 IMKEIKKQGFEKPSPIQSQAWPIILQGIDLIGVAQTGTGKTLAYLLPgFIHLDLQPIPREQRNGPGVLVLTPTRELALQI 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 100 NEVLTHFNkhFPQFRQILLIGGSNPIEDVEKFKEhGGNIIIATPGRLEDMFrrkadgLDLATCVKTLDVLVLDEADRLLD 179
Cdd:cd17958   81 EAECSKYS--YKGLKSVCVYGGGNRNEQIEDLSK-GVDIIIATPGRLNDLQ------MNNVINLKSITYLVLDEADRMLD 151

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 556954799 180 MGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIT 225
Cdd:cd17958  152 MGFEPQIRKILLDIRPDRQTIMTSATWPDGVRRLAQSYLKDPMIVY 197
DEADc_DDX51 cd17956
DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by ...
 21-221 1.17e-35

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: 133.53  E-value: 1.17e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIP-LFMNNK--------DVAAEAVTGSGKTLAFVIPILEILLRRedklKKMQVGAIIITP 91
Cdd:cd17956    1 LLKNLQNNGITSAFPVQAAVIPwLLPSSKstppyrpgDLCVSAPTGSGKTLAYVLPIVQALSKR----VVPRLRALIVVP 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  92 TRELAIQINEVLTHFNKHFPQfrQILLIGGSNPIEDVEK---FKEHGG-----NIIIATPGRLEDMFRRKaDGLDLatcv 163
Cdd:cd17956   77 TKELVQQVYKVFESLCKGTGL--KVVSLSGQKSFKKEQKlllVDTSGRylsrvDILVATPGRLVDHLNST-PGFTL---- 149

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 556954799 164 KTLDVLVLDEADRLLDMGFEASLNTILGYL-----PKQRRTG---------------LFSATQTQEVENLVRAGLRNP 221
Cdd:cd17956  150 KHLRFLVIDEADRLLNQSFQDWLETVMKALgrptaPDLGSFGdanllersvrplqklLFSATLTRDPEKLSSLKLHRP 227
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
 15-226 1.90e-35

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: 133.63  E-value: 1.90e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  15 VKLNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILL------------RREDKLKKM 82
Cdd:cd18051   26 LDLGEIIRNNIELARYTKPTPVQKHAIPIIKSKRDLMACAQTGSGKTAAFLLPILSQIYeqgpgeslpsesGYYGRRKQY 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  83 QVgAIIITPTRELAIQINEVLTHFNkHFPQFRQILLIGGSNPIEDVEKFkEHGGNIIIATPGRLEDMFRRKADGLDlatC 162
Cdd:cd18051  106 PL-ALVLAPTRELASQIYDEARKFA-YRSRVRPCVVYGGADIGQQMRDL-ERGCHLLVATPGRLVDMLERGKIGLD---Y 179

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 556954799 163 VKtldVLVLDEADRLLDMGFEASLNTIL--GYLPK--QRRTGLFSATQTQEVENLVRAGLRNPVRITV 226
Cdd:cd18051  180 CK---YLVLDEADRMLDMGFEPQIRRIVeqDTMPPtgERQTLMFSATFPKEIQMLARDFLDNYIFLAV 244
DEADc_DDX59 cd17962
DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer ...
 34-225 4.42e-34

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: 128.05  E-value: 4.42e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  34 TPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDklkkmQVGAIIITPTRELAIQINEVLTHFNKHFPQF 113
Cdd:cd17962   14 TPIQMQMIPVGLLGRDILASADTGSGKTAAFLLPVIIRCLTEHR-----NPSALILTPTRELAVQIEDQAKELMKGLPPM 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 114 RQILLIGGSNPIEDVEKFKEhGGNIIIATPGRLEDMFRRKADGLDlatcvkTLDVLVLDEADRLLDMGFEASLNTILGYL 193
Cdd:cd17962   89 KTALLVGGLPLPPQLYRLQQ-GVKVIIATPGRLLDILKQSSVELD------NIKIVVVDEADTMLKMGFQQQVLDILENI 161

                        170       180       190
                 ....*....|....*....|....*....|..
gi 556954799 194 PKQRRTGLFSATQTQEVENLVRAGLRNPVRIT 225
Cdd:cd17962  162 SHDHQTILVSATIPRGIEQLAGQLLQNPVRIT 193
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
 17-226 2.17e-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: 123.99  E-value: 2.17e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  17 LNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEiLLRREDKlkkmQVGAIIITPTRELA 96
Cdd:cd17950    9 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLSTLQ-QLEPVDG----QVSVLVICHTRELA 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  97 IQINEVLTHFNKHFPQFRQILLIGGSNPIEDVEKFKEHGGNIIIATPGRLEDMFRRKAdgLDLatcvKTLDVLVLDEADR 176
Cdd:cd17950   84 FQISNEYERFSKYMPNVKTAVFFGGVPIKKDIEVLKNKCPHIVVGTPGRILALVREKK--LKL----SHVKHFVLDECDK 157

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 556954799 177 LL-DMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRITV 226
Cdd:cd17950  158 MLeQLDMRRDVQEIFRATPHDKQVMMFSATLSKEIRPVCKKFMQDPLEIFV 208
DEADc_EIF4AIII_DDX48 cd18045
DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor ...
 15-224 2.86e-30

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: 117.57  E-value: 2.86e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  15 VKLNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILlrrEDKLKKMQVgaIIITPTRE 94
Cdd:cd18045    4 MGLREDLLRGIYAYGFEKPSAIQQRAIKPIIKGRDVIAQSQSGTGKTATFSISVLQCL---DIQVRETQA--LILSPTRE 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  95 LAIQINEVLTHFNkHFPQFRQILLIGGSNPIEDVEKFkEHGGNIIIATPGRLEDMFRRKadglDLATcvKTLDVLVLDEA 174
Cdd:cd18045   79 LAVQIQKVLLALG-DYMNVQCHACIGGTSVGDDIRKL-DYGQHIVSGTPGRVFDMIRRR----SLRT--RHIKMLVLDEA 150

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 556954799 175 DRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 224
Cdd:cd18045  151 DEMLNKGFKEQIYDVYRYLPPATQVVLVSATLPQDILEMTNKFMTDPIRI 200
DEADc_DDX5 cd18049
DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, ...
 20-226 1.06e-29

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: 117.03  E-value: 1.06e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  20 NVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIP-ILEI----LLRREDklkkmqvGAI--IITPT 92
Cdd:cd18049   34 NVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPaIVHInhqpFLERGD-------GPIclVLAPT 106

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  93 RELAIQINEVLTHFNKHfPQFRQILLIGGS--NP-IEDVEKfkehGGNIIIATPGRLEDMFrrKADGLDLATCVktldVL 169
Cdd:cd18049  107 RELAQQVQQVAAEYGRA-CRLKSTCIYGGApkGPqIRDLER----GVEICIATPGRLIDFL--EAGKTNLRRCT----YL 175

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 556954799 170 VLDEADRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRITV 226
Cdd:cd18049  176 VLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINI 232
DEADc_EIF4AII_EIF4AI_DDX2 cd18046
DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation ...
 37-224 9.38e-29

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: 113.31  E-value: 9.38e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  37 QSATIPLfMNNKDVAAEAVTGSGKTLAFVIPILEillRREDKLKKMQvgAIIITPTRELAIQINEVLTHFNKHFpQFRQI 116
Cdd:cd18046   27 QRAIMPC-IKGYDVIAQAQSGTGKTATFSISILQ---QIDTSLKATQ--ALVLAPTRELAQQIQKVVMALGDYM-GIKCH 99

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 117 LLIGGSNPIEDVEKFKEhGGNIIIATPGRLEDMFRRKAdgldLATcvKTLDVLVLDEADRLLDMGFEASLNTILGYLPKQ 196
Cdd:cd18046  100 ACIGGTSVRDDAQKLQA-GPHIVVGTPGRVFDMINRRY----LRT--DYIKMFVLDEADEMLSRGFKDQIYDIFQKLPPD 172

                        170       180
                 ....*....|....*....|....*...
gi 556954799 197 RRTGLFSATQTQEVENLVRAGLRNPVRI 224
Cdd:cd18046  173 TQVVLLSATMPNDVLEVTTKFMRDPIRI 200
DEADc_DDX17 cd18050
DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or ...
 21-226 6.08e-28

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: 113.18  E-value: 6.08e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPIL-----EILLRREDklkkmqvGAI--IITPTR 93
Cdd:cd18050   73 VMDVLLDQNFKEPTPIQCQGFPLALSGRDMVGIAQTGSGKTLAYLLPAIvhinhQPYLERGD-------GPIclVLAPTR 145

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  94 ELAIQINEVLTHFNKHfPQFRQILLIGGS--NP-IEDVEKfkehGGNIIIATPGRLEDMFrrKADGLDLATCVktldVLV 170
Cdd:cd18050  146 ELAQQVQQVADDYGKS-SRLKSTCIYGGApkGPqIRDLER----GVEICIATPGRLIDFL--EAGKTNLRRCT----YLV 214

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 556954799 171 LDEADRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRITV 226
Cdd:cd18050  215 LDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLRDYVQINI 270
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 254-364 7.64e-28

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: 107.68  E-value: 7.64e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  254 EKFNQLVAFLRQHKREKHLIFFSTCACVEYygkGLEGLVKNVKIMCIHGKMKHK-RNKIFTDFRQLESGILVCTDVMARG 332
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLEA---ELLLEKEGIKVARLHGDLSQEeREEILEDFRKGKIDVLVATDVAERG 77

                          90       100       110
                  ....*....|....*....|....*....|..
gi 556954799  333 IDIPEVNWVLQYDPPSSASAFVHRCGRTARIG 364
Cdd:pfam00271  78 LDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
DEADc_DDX19_DDX25 cd17963
DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called ...
 17-225 8.22e-28

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: 110.74  E-value: 8.22e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  17 LNENVIQALKELKFTHMTPVQSATIPLFMNN--KDVAAEAVTGSGKTLAFVIPILEillRREDKLKKMQvgAIIITPTRE 94
Cdd:cd17963    1 LKPELLKGLYAMGFNKPSKIQETALPLILSDppENLIAQSQSGTGKTAAFVLAMLS---RVDPTLKSPQ--ALCLAPTRE 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  95 LAIQINEVLTHFNKhFPQFRQILLIGGsNPIEDVEKFKEHggnIIIATPGRLEDMFRRKAdgLDLatcvKTLDVLVLDEA 174
Cdd:cd17963   76 LARQIGEVVEKMGK-FTGVKVALAVPG-NDVPRGKKITAQ---IVIGTPGTVLDWLKKRQ--LDL----KKIKILVLDEA 144

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 556954799 175 DRLLDM-GFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIT 225
Cdd:cd17963  145 DVMLDTqGHGDQSIRIKRMLPRNCQILLFSATFPDSVRKFAEKIAPNANTIK 196
DEADc_DDX28 cd17948
DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box ...
 21-194 3.78e-24

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: 101.29  E-value: 3.78e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  21 VIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRRE--DKLKKMQVGAIIITPTRELAIQ 98
Cdd:cd17948    1 LVEILQRQGITKPTTVQKQGIPSILRGRNTLCAAETGSGKTLTYLLPIIQRLLRYKllAEGPFNAPRGLVITPSRELAEQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  99 INEVLTHFNKHFPQFRQIllIGGSNPIEDVEKFKEHGGNIIIATPGRLEDMFRRKADGLDLATCvktldvLVLDEADRLL 178
Cdd:cd17948   81 IGSVAQSLTEGLGLKVKV--ITGGRTKRQIRNPHFEEVDILVATPGALSKLLTSRIYSLEQLRH------LVLDEADTLL 152

                        170
                 ....*....|....*.
gi 556954799 179 DMGFEASLNTILGYLP 194
Cdd:cd17948  153 DDSFNEKLSHFLRRFP 168
HELICc smart00490
helicase superfamily c-terminal domain;
293-364 2.38e-23

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 93.82  E-value: 2.38e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 556954799   293 KNVKIMCIHGKMKHK-RNKIFTDFRQLESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIG 364
Cdd:smart00490  10 LGIKVARLHGGLSQEeREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
DEADc_DDX21_DDX50 cd17944
DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and ...
 22-219 1.12e-22

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: 96.07  E-value: 1.12e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  22 IQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLKKMQV-GAIIITPTRELAIQIN 100
Cdd:cd17944    2 IKLLQARGVTYLFPIQVKTFHPVYSGKDLIAQARTGTGKTFSFAIPLIEKLQEDQQPRKRGRApKVLVLAPTRELANQVT 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 101 EVLTHFNKhfpQFRQILLIGGSNPIEDVEKFKEhGGNIIIATPGRLEDMFRRKAdgLDLAtcvkTLDVLVLDEADRLLDM 180
Cdd:cd17944   82 KDFKDITR---KLSVACFYGGTPYQQQIFAIRN-GIDILVGTPGRIKDHLQNGR--LDLT----KLKHVVLDEVDQMLDM 151

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 556954799 181 GFEASLNTILGYLPKQR-----RTGLFSATQTQEVENLVRAGLR 219
Cdd:cd17944  152 GFAEQVEEILSVSYKKDsednpQTLLFSATCPDWVYNVAKKYMK 195
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
46-373 5.04e-20

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 93.94  E-value: 5.04e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  46 NNKDVAAEAVTGSGKTLAFVIPILEILLRREdklkkmqvgAIIITPTRELAIQINEVLTHFnkhfpqFRQILLIGGSnpi 125
Cdd:COG1061   99 GGGRGLVVAPTGTGKTVLALALAAELLRGKR---------VLVLVPRRELLEQWAEELRRF------LGDPLAGGGK--- 160

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 126 edvekfKEHGGNIIIATPgrleDMFRRKADgldLATCVKTLDVLVLDEADRLLDMGFEAslntILGYLPKQRRTGLfSAT 205
Cdd:COG1061  161 ------KDSDAPITVATY----QSLARRAH---LDELGDRFGLVIIDEAHHAGAPSYRR----ILEAFPAAYRLGL-TAT 222

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 206 ------QTQEVEN------------LVRAG-LRNPVRITVKEKGVAASNTQKTPARLKNYYMICRTDEKFNQLVAFLRQH 266
Cdd:COG1061  223 pfrsdgREILLFLfdgivyeyslkeAIEDGyLAPPEYYGIRVDLTDERAEYDALSERLREALAADAERKDKILRELLREH 302

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 267 KREKH-LIFFSTCACVEYYGKGLEGlvKNVKIMCIHGKMKHK-RNKIFTDFRQLESGILVCTDVMARGIDIPEVNWVLQY 344
Cdd:COG1061  303 PDDRKtLVFCSSVDHAEALAELLNE--AGIRAAVVTGDTPKKeREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAILL 380

                        330       340
                 ....*....|....*....|....*....
gi 556954799 345 DPPSSASAFVHRCGRTARIGNHGSALVFL 373
Cdd:COG1061  381 RPTGSPREFIQRLGRGLRPAPGKEDALVY 409
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 406-463 4.34e-19

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 80.90  E-value: 4.34e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 556954799  406 PKLKSMAMCDRAVFEKGMRAFVSFVQAYAKHECSLIFRLKDLNFASLARGFALLKMPK 463
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAPK 59
DEADc_MRH4 cd17965
DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 ...
 23-225 3.17e-18

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: 84.35  E-value: 3.17e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  23 QALKELKFTHMTPVQSATIP----LFMNNKD--------------VAAEavTGSGKTLAFVIPILEILLRREDKLKKM-- 82
Cdd:cd17965   21 GSNKTDEEIKPSPIQTLAIKkllkTLMRKVTkqtsneepklevflLAAE--TGSGKTLAYLAPLLDYLKRQEQEPFEEae 98

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  83 ----------QVGAIIITPTRELAIQINEVLTHFNkHFPQFRQILLIGGSNPI-EDVEKFKEHGGNIIIATPGRLEDMFR 151
Cdd:cd17965   99 eeyesakdtgRPRSVILVPTHELVEQVYSVLKKLS-HTVKLGIKTFSSGFGPSyQRLQLAFKGRIDILVTTPGKLASLAK 177

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 556954799 152 RKADGLDLATcvktldVLVLDEADRLLDMGFEASLNTILGYLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIT 225
Cdd:cd17965  178 SRPKILSRVT------HLVVDEADTLFDRSFLQDTTSIIKRAPKLKHLILCSATIPKEFDKTLRKLFPDVVRIA 245
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 47-205 5.00e-16

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: 75.13  E-value: 5.00e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  47 NKDVAAEAVTGSGKTLAFVIPILEILLRREDKlkkmqvgAIIITPTRELAIQINEVL-THFNKHFPqfrqILLIGGSNPI 125
Cdd:cd00046    1 GENVLITAPTGSGKTLAALLAALLLLLKKGKK-------VLVLVPTKALALQTAERLrELFGPGIR----VAVLVGGSSA 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 126 EDVEKFKEHGGNIIIATPGRLEDMFRRkadglDLATCVKTLDVLVLDEADRLLDMGFEASLNTILG--YLPKQRRTGLFS 203
Cdd:cd00046   70 EEREKNKLGDADIIIATPDMLLNLLLR-----EDRLFLKDLKLIIVDEAHALLIDSRGALILDLAVrkAGLKNAQVILLS 144


                 ..
gi 556954799 204 AT 205
Cdd:cd00046  145 AT 146
DEADc_DDX25 cd18048
DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated ...
 15-205 1.88e-13

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: 70.05  E-value: 1.88e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  15 VKLNENVIQALKELKFTHMTPVQSATIPLFMNN--KDVAAEAVTGSGKTLAFVIPileiLLRREDKLKKMQvGAIIITPT 92
Cdd:cd18048   23 LHLKEELLRGIYAMGFNRPSKIQENALPMMLADppQNLIAQSQSGTGKTAAFVLA----MLSRVDALKLYP-QCLCLSPT 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  93 RELAIQINEVLTHFNKHFPQFRQILLIGGSNPIE--DVEKfkehggNIIIATPGRLED-MFRrkadgLDLATcVKTLDVL 169
Cdd:cd18048   98 FELALQTGKVVEEMGKFCVGIQVIYAIRGNRPGKgtDIEA------QIVIGTPGTVLDwCFK-----LRLID-VTNISVF 165

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 556954799 170 VLDEADRLLDM-GFEASLNTILGYLPKQRRTGLFSAT 205
Cdd:cd18048  166 VLDEADVMINVqGHSDHSVRVKRSMPKECQMLLFSAT 202
ComFA COG4098
Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [Replication, ...
 54-361 6.44e-13

Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [Replication, recombination and repair];


Pssm-ID: 443274 [Multi-domain]  Cd Length: 451  Bit Score: 71.06  E-value: 6.44e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  54 AVTGSGKT-LAFviPILEILLRRedklkKMQVGaiIITPTRELaiqINEVLTHFNKHFPQFRQILLIGGSnpiEDvekfK 132
Cdd:COG4098  136 AVCGAGKTeMLF--PAIAEALKQ-----GGRVC--IATPRVDV---VLELAPRLQQAFPGVDIAALYGGS---EE----K 196

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 133 EHGGNIIIATPG---RLEDMFrrkadgldlatcvktlDVLVLDEADrlldmGFEASLNTILGYLPKQ-RRTG----LFSA 204
Cdd:COG4098  197 YRYAQLVIATTHqllRFYQAF----------------DLLIIDEVD-----AFPYSGDPMLQYAVKRaRKPDgkliYLTA 255

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 205 TQTQEVENLVRAGLRNPVRItvkekgvaasntqktPAR-------------LKNYYMICRTDEKFNQLVAFLRQHKREKH 271
Cdd:COG4098  256 TPSKALQRQVKRGKLKVVKL---------------PARyhghplpvpkfkwLGNWKKRLRRGKLPRKLLKWLKKRLKEGR 320

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 272 --LIFFSTCACVEYYGKGLEGLVKNVKIMCIHGKMKHKRNKIfTDFRQLESGILVCTDVMARGIDIPEVN-WVLQYDPPS 348
Cdd:COG4098  321 qlLIFVPTIELLEQLVALLQKLFPEERIAGVHAEDPERKEKV-QAFRDGEIPILVTTTILERGVTFPNVDvAVLGADHPV 399

                        330
                 ....*....|....*..
gi 556954799 349 -SASAFVH---RCGRTA 361
Cdd:COG4098  400 fTEAALVQiagRVGRSA 416
BRR2 COG1204
Replicative superfamily II helicase [Replication, recombination and repair];
19-205 2.25e-11

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


Pssm-ID: 440817 [Multi-domain]  Cd Length: 529  Bit Score: 66.46  E-value: 2.25e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  19 ENVIQALKELKFTHMTPVQSATIP-LFMNNKDVAAEAVTGSGKTLafvipILEILLRREDKLKKMqvgAIIITPTRELAi 97
Cdd:COG1204    9 EKVIEFLKERGIEELYPPQAEALEaGLLEGKNLVVSAPTASGKTL-----IAELAILKALLNGGK---ALYIVPLRALA- 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  98 qiNEVLTHFNKHFPQFRQILLIGGSNPIEDVEKFKEHggNIIIATPGRLEDMFRRKADGLDlatcvkTLDVLVLDEAdRL 177
Cdd:COG1204   80 --SEKYREFKRDFEELGIKVGVSTGDYDSDDEWLGRY--DILVATPEKLDSLLRNGPSWLR------DVDLVVVDEA-HL 148

                        170       180       190
                 ....*....|....*....|....*....|...
gi 556954799 178 LD-----MGFEASLNTILGYLPKQRRTGLfSAT 205
Cdd:COG1204  149 IDdesrgPTLEVLLARLRRLNPEAQIVAL-SAT 180
DEADc_DDX19 cd18047
DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both ...
 15-205 3.13e-10

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: 60.12  E-value: 3.13e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  15 VKLNENVIQALKELKFTHMTPVQSATIPLFMNN--KDVAAEAVTGSGKTLAFVIPILEILlrrEDKLKKMQvgAIIITPT 92
Cdd:cd18047    6 LRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEppQNLIAQSQSGTGKTAAFVLAMLSQV---EPANKYPQ--CLCLSPT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  93 RELAIQINEVLTHFNKHFPQFRQILLIGGSNpIEDVEKFKEHggnIIIATPGRLedmfrrkadgLDLATCVKTLD----- 167
Cdd:cd18047   81 YELALQTGKVIEQMGKFYPELKLAYAVRGNK-LERGQKISEQ---IVIGTPGTV----------LDWCSKLKFIDpkkik 146

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 556954799 168 VLVLDEADRLL-DMGFEASLNTILGYLPKQRRTGLFSAT 205
Cdd:cd18047  147 VFVLDEADVMIaTQGHQDQSIRIQRMLPRNCQMLLFSAT 185
DEXHc_Hrq1-like cd17923
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ...
 56-174 1.64e-09

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: 57.59  E-value: 1.64e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  56 TGSGKTLAFVIPILEILLRREdklkkmQVGAIIITPTRELAIQINEVLTHFNKHFPQFRQILLIGGSNPIEDVEKFKEHG 135
Cdd:cd17923   24 TASGKSLCYQLPILEALLRDP------GSRALYLYPTKALAQDQLRSLRELLEQLGLGIRVATYDGDTPREERRAIIRNP 97

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 556954799 136 GNIIIATPGRLEDMFRRKADGldLATCVKTLDVLVLDEA 174
Cdd:cd17923   98 PRILLTNPDMLHYALLPHHDR--WARFLRNLRYVVLDEA 134
SF2_C_LHR cd18796
C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a ...
 257-373 3.01e-09

C-terminal helicase domain of LHR family helicases; 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. LHR family helicases 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: 350183 [Multi-domain]  Cd Length: 150  Bit Score: 55.73  E-value: 3.01e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 257 NQLVAFLRQHKreKHLIFFSTCACVEYYGKGL----EGLVKNVKIMCIHGKM-KHKRNKIFTDFRQLESGILVCTDVMAR 331
Cdd:cd18796   29 AEVIFLLERHK--STLVFTNTRSQAERLAQRLrelcPDRVPPDFIALHHGSLsRELREEVEAALKRGDLKVVVATSSLEL 106

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 556954799 332 GIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFL 373
Cdd:cd18796  107 GIDIGDVDLVIQIGSPKSVARLLQRLGRSGHRPGAASKGRLV 148
YprA COG1205
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, ...
 7-174 3.81e-09

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: 59.46  E-value: 3.81e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799   7 EGAWESLPVKLNENVIQALKELKFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDklkkmqVGA 86
Cdd:COG1205   31 EARYAPWPDWLPPELRAALKKRGIERLYSHQAEAIEAARAGKNVVIATPTASGKSLAYLLPVLEALLEDPG------ATA 104

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  87 IIITPTRELAiqiNEVLTHFNKhfpqFRQILLIG-------GSNPIEDVEKFKEHgGNIIIATPgrleDM---------- 149
Cdd:COG1205  105 LYLYPTKALA---RDQLRRLRE----LAEALGLGvrvatydGDTPPEERRWIREH-PDIVLTNP----DMlhygllphht 172

                        170       180
                 ....*....|....*....|....*.
gi 556954799 150 -FRRkadgldlatCVKTLDVLVLDEA 174
Cdd:COG1205  173 rWAR---------FFRNLRYVVIDEA 189
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 311-373 7.91e-09

C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases include DEAD-box helicases, UvrB, RecG, Ski2, Sucrose Non-Fermenting (SNF) family helicases, and dicer proteins, among others. Similar to SF1 helicases, they do not form toroidal structures like SF3-6 helicases. SF2 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The 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: 350172 [Multi-domain]  Cd Length: 77  Bit Score: 52.71  E-value: 7.91e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 556954799 311 IFTDFR----QLES--GILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVFL 373
Cdd:cd18785    8 VFTNSIehaeEIASslEILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGRGGKDEGEVILF 76
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
306-364 3.92e-08

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


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 56.28  E-value: 3.92e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 556954799 306 HKRNKIFTDFRQLESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIG 364
Cdd:COG1111  398 KEQIEILERFRAGEFNVLVATSVAEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGRKR 456
DEXHc_HFM1 cd18023
DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box ...
 36-173 4.81e-08

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: 53.51  E-value: 4.81e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  36 VQSATIP-LFMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKlKKMQVGAIIITPTRELAiqiNEVLTHFNKHFPQFR 114
Cdd:cd18023    5 IQSEVFPdLLYSDKNFVVSAPTGSGKTVLFELAILRLLKERNPL-PWGNRKVVYIAPIKALC---SEKYDDWKEKFGPLG 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 556954799 115 QILL-IGGSNPIEDVEKFKehGGNIIIATPGRLEDMFRRKADGLDLATCVKtldvLVL-DE 173
Cdd:cd18023   81 LSCAeLTGDTEMDDTFEIQ--DADIILTTPEKWDSMTRRWRDNGNLVQLVA----LVLiDE 135
SF2_C_FANCM_Hef cd18801
C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M ...
 255-362 1.53e-07

C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M (FANCM) protein is a DNA-dependent ATPase component of the Fanconi anemia (FA) core complex. It is 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. Hef (helicase-associated endonuclease fork-structure) belongs to the XPF/MUS81/FANCM family of endonucleases and is involved in stalled replication fork repair. FANCM and Hef 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: 350188 [Multi-domain]  Cd Length: 143  Bit Score: 50.82  E-value: 1.53e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 255 KFNQLVAFLRQH-------KREKHLIFFSTCACVEYYGKGLEGLVKNVKIMCIHGKMKHKRNKIFT---------DFRQL 318
Cdd:cd18801   10 KLEKLEEIVKEHfkkkqegSDTRVIIFSEFRDSAEEIVNFLSKIRPGIRATRFIGQASGKSSKGMSqkeqkevieQFRKG 89

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 556954799 319 ESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTAR 362
Cdd:cd18801   90 GYNVLVATSIGEEGLDIGEVDLIICYDASPSPIRMIQRMGRTGR 133
Cas3_I cd09639
CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short ...
 49-364 2.38e-07

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: 53.20  E-value: 2.38e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  49 DVAAEAVTGSGKT-LAFVIPILEILLRREDKLkkmqvgaIIITPTRELAIQI----NEVLTHFN--KHFPQFRQILLIGG 121
Cdd:cd09639    1 LLVIEAPTGYGKTeAALLWALHSLKSQKADRV-------IIALPTRATINAMyrraKEAFGETGlyHSSILSSRIKEMGD 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 122 SNPIEDVEKFKEHGGNIIIATPGRLEDMFR------RKADGLDLATCVKTLDVLVLDEADRLLD--MGFeaslntILGYL 193
Cdd:cd09639   74 SEEFEHLFPLYIHSNDTLFLDPITVCTIDQvlksvfGEFGHYEFTLASIANSLLIFDEVHFYDEytLAL------ILAVL 147

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 194 PKQRRTG----LFSATQTqevENLVRAGLRN--------PVRITVKEkgvaasntQKTPARLKnyymicRTDEKFNQLVA 261
Cdd:cd09639  148 EVLKDNDvpilLMSATLP---KFLKEYAEKIgyveenepLDLKPNER--------APFIKIES------DKVGEISSLER 210

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 262 FLRQHKRE-KHLIFFSTC-ACVEYYGKGLEgLVKNVKIMCIHGKM--KHKRNK---IFTDFRQLESGILVCTDVMARGID 334
Cdd:cd09639  211 LLEFIKKGgSVAIIVNTVdRAQEFYQQLKE-KGPEEEIMLIHSRFteKDRAKKeaeLLLEFKKSEKFVIVATQVIEASLD 289

                        330       340       350
                 ....*....|....*....|....*....|
gi 556954799 335 IpEVNWVlqYDPPSSASAFVHRCGRTARIG 364
Cdd:cd09639  290 I-SVDVM--ITELAPIDSLIQRLGRLHRYG 316
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 32-174 2.76e-07

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: 51.11  E-value: 2.76e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  32 HMTPVQSATIPLFMN-NKDVAAEAVTGSGKTLAFVIPILEILLRREDKlkkmqvgAIIITPTRELAiqiNEVLTHFNKhf 110
Cdd:cd17921    1 LLNPIQREALRALYLsGDSVLVSAPTSSGKTLIAELAILRALATSGGK-------AVYIAPTRALV---NQKEADLRE-- 68

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 556954799 111 pQFRQI-LLIGGSNPIEDVEKFKEHGGNIIIATPGRLEDMFRRKADGLdlatcVKTLDVLVLDEA 174
Cdd:cd17921   69 -RFGPLgKNVGLLTGDPSVNKLLLAEADILVATPEKLDLLLRNGGERL-----IQDVRLVVVDEA 127
DEXHc_LHR-like cd17922
DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA ...
 47-216 8.21e-07

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: 49.12  E-value: 8.21e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  47 NKDVAAEAVTGSGKTLAFVIPILEILLRREDKlkkmQVGAIIITPTRELA--IQ--INEVLTHFNkhfPQFRQILLIGGS 122
Cdd:cd17922    1 GRNVLIAAPTGSGKTEAAFLPALSSLADEPEK----GVQVLYISPLKALIndQErrLEEPLDEID---LEIPVAVRHGDT 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 123 NPIEDvEKFKEHGGNIIIATPGRLEDMF-RRKADGLdlatcVKTLDVLVLDEADRLLD----MGFEASLNTILGYL-PKQ 196
Cdd:cd17922   74 SQSEK-AKQLKNPPGILITTPESLELLLvNKKLREL-----FAGLRYVVVDEIHALLGskrgVQLELLLERLRKLTgRPL 147

                        170       180
                 ....*....|....*....|
gi 556954799 197 RRTGLfSATqtqeVENLVRA 216
Cdd:cd17922  148 RRIGL-SAT----LGNLEEA 162
SF2_C_dicer cd18802
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave ...
 304-362 8.75e-07

C-terminal helicase domain of the 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. Dicer exists throughout eukaryotes, and a subset has 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 helicase domains 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: 350189 [Multi-domain]  Cd Length: 142  Bit Score: 48.74  E-value: 8.75e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 304 MKHKRNK-IFTDFRQLESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRtAR 362
Cdd:cd18802   74 MTQRKQKeTLDKFRDGELNLLIATSVLEEGIDVPACNLVIRFDLPKTLRSYIQSRGR-AR 132
SF2_C_TRCF cd18810
C-terminal helicase domain of the transcription-repair coupling factor; Transcription-repair ...
 254-339 1.45e-06

C-terminal helicase domain of the transcription-repair coupling factor; Transcription-repair coupling factor (TrcF) dissociates transcription elongation complexes blocked at nonpairing lesions and mediates recruitment of DNA repair proteins. TrcF is a DEAD-like helicase 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: 350197 [Multi-domain]  Cd Length: 151  Bit Score: 48.11  E-value: 1.45e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 254 EKFNQLV---AFLRQHKREKHlIFF--STCACVEYYGKGLEGLVKNVKIMCIHGKM-KHKRNKIFTDFRQLESGILVCTD 327
Cdd:cd18810    7 MPYDDELireAIERELLRGGQ-VFYvhNRIESIEKLATQLRQLVPEARIAIAHGQMtENELEEVMLEFAKGEYDILVCTT 85

                         90
                 ....*....|..
gi 556954799 328 VMARGIDIPEVN 339
Cdd:cd18810   86 IIESGIDIPNAN 97
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
250-372 1.71e-06

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


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 50.91  E-value: 1.71e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 250 CRTDEKFNQLVAFLRQHKREKHLIFFSTCACVEYYGKGLEGlvKNVKIMCIHGKMKHK-RNKIFTDFRQLESGILVCTdV 328
Cdd:COG0514  212 KPPDDKLAQLLDFLKEHPGGSGIVYCLSRKKVEELAEWLRE--AGIRAAAYHAGLDAEeREANQDRFLRDEVDVIVAT-I 288

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 556954799 329 ---MarGIDIPEVNWVLQYDPPSSASAFVHRCGRTARIGNHGSALVF 372
Cdd:COG0514  289 afgM--GIDKPDVRFVIHYDLPKSIEAYYQEIGRAGRDGLPAEALLL 333
SF2_C_RecG_TRCF cd18792
C-terminal helicase domain of the RecG family helicases; The DEAD-like helicase RecG family ...
 281-375 2.37e-06

C-terminal helicase domain of the RecG family helicases; The DEAD-like helicase RecG family contains recombination factor RecG and transcription-repair coupling factor TrcF. 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: 350179 [Multi-domain]  Cd Length: 160  Bit Score: 47.65  E-value: 2.37e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 281 VEYYGKGLEGLVKNVKIMCIHGKMK-HKRNKIFTDFRQLESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRC-G 358
Cdd:cd18792   47 IEALAEELKELVPEARVALLHGKMTeDEKEAVMLEFREGEYDILVSTTVIEVGIDVPNANTMIIEDADRFGLSQLHQLrG 126

                         90
                 ....*....|....*..
gi 556954799 359 RTARiGNHGSALVFLLP 375
Cdd:cd18792  127 RVGR-GKHQSYCYLLYP 142
PRK13767 PRK13767
ATP-dependent helicase; Provisional
 29-96 3.62e-06

ATP-dependent helicase; Provisional


Pssm-ID: 237497 [Multi-domain]  Cd Length: 876  Bit Score: 50.27  E-value: 3.62e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  29 KFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLAFVIPILEILLR--REDKLKKmQVGAIIITPTRELA 96
Cdd:PRK13767  29 KFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRlgREGELED-KVYCLYVSPLRALN 97
DEXHc_archSki2 cd18028
DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play ...
 35-205 4.50e-06

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: 47.33  E-value: 4.50e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  35 PVQSATI-PLFMNNKDVAAEAVTGSGKTLAFVIPILEILLRRedklKKmqvgAIIITPTRELAiqiNEVLTHFNKHFPQF 113
Cdd:cd18028    4 PPQAEAVrAGLLKGENLLISIPTASGKTLIAEMAMVNTLLEG----GK----ALYLVPLRALA---SEKYEEFKKLEEIG 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 114 RQILLIGGSNPIEDvekfkEHGGN--IIIATPGRLEDMFRRKADGLdlatcvKTLDVLVLDEADRLLDMGFEASLNTILG 191
Cdd:cd18028   73 LKVGISTGDYDEDD-----EWLGDydIIVATYEKFDSLLRHSPSWL------RDVGVVVVDEIHLISDEERGPTLESIVA 141

                        170
                 ....*....|....*...
gi 556954799 192 YL----PKQRRTGLfSAT 205
Cdd:cd18028  142 RLrrlnPNTQIIGL-SAT 158
DEXHc_RE cd17926
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ...
 54-205 7.99e-06

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: 45.76  E-value: 7.99e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  54 AVTGSGKTLafvIPILEILLRREDKLkkmqvgaIIITPTRELAIQINEVLTHFNKHfpqfRQILLIGGsnpieDVEKFKE 133
Cdd:cd17926   25 LPTGSGKTL---TALALIAYLKELRT-------LIVVPTDALLDQWKERFEDFLGD----SSIGLIGG-----GKKKDFD 85

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 556954799 134 hGGNIIIATPGRLEDMFRRKADGLDLAtcvktlDVLVLDEADRLLDMGFEAslntILGYLPKQRRTGlFSAT 205
Cdd:cd17926   86 -DANVVVATYQSLSNLAEEEKDLFDQF------GLLIVDEAHHLPAKTFSE----ILKELNAKYRLG-LTAT 145
mfd TIGR00580
transcription-repair coupling factor (mfd); All proteins in this family for which functions ...
 281-339 8.72e-06

transcription-repair coupling factor (mfd); All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273152 [Multi-domain]  Cd Length: 926  Bit Score: 48.89  E-value: 8.72e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  281 VEYYGKGLEGLVKNVKIMCIHGKM-KHKRNKIFTDFRQLESGILVCTDVMARGIDIPEVN 339
Cdd:TIGR00580 673 IEKLATQLRELVPEARIAIAHGQMtENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNAN 732
SF2_C_XPB cd18789
C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex ...
 255-374 2.31e-05

C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex helicase XPB (xeroderma pigmentosum type B) subunit (also known as DNA excision repair protein ERCC-3 or TFIIH 89 kDa subunit) is the ATP-dependent 3'-5' DNA helicase component of the core-TFIIH basal transcription factor, involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. XPB is a DEAD-like helicase 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: 350176 [Multi-domain]  Cd Length: 153  Bit Score: 44.93  E-value: 2.31e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 255 KFNQLVAFLRQHKR-EKHLIFFSTCACVEYYGKGLeglvknvKIMCIHGKMKHK-RNKIFTDFRQLESGILVCTDVMARG 332
Cdd:cd18789   35 KLRALEELLKRHEQgDKIIVFTDNVEALYRYAKRL-------LKPFITGETPQSeREEILQNFREGEYNTLVVSKVGDEG 107

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 556954799 333 IDIPEVNWVLQYdppSSASA----FVHRCGRTARIGNHGSALVFLL 374
Cdd:cd18789  108 IDLPEANVAIQI---SGHGGsrrqEAQRLGRILRPKKGGGKNAFFY 150
PRK13766 PRK13766
Hef nuclease; Provisional
 315-362 3.31e-05

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 46.79  E-value: 3.31e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 556954799 315 FRQLESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRCGRTAR 362
Cdd:PRK13766 419 FRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPVPSEIRSIQRKGRTGR 466
SF2_C_RecG cd18811
C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a ...
 294-379 5.49e-05

C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a critical role in recombination and DNA repair. RecG helps process Holliday junction intermediates to mature products by catalyzing branch migration. It is a DEAD-like helicase 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: 350198 [Multi-domain]  Cd Length: 159  Bit Score: 43.87  E-value: 5.49e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 294 NVKIMCIHGKMKHK-RNKIFTDFRQLESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRC-GRTARiGNHGSALV 371
Cdd:cd18811   61 ELNVGLLHGRLKSDeKDAVMAEFREGEVDILVSTTVIEVGVDVPNATVMVIEDAERFGLSQLHQLrGRVGR-GDHQSYCL 139


                 ....*...
gi 556954799 372 FLLPMEES 379
Cdd:cd18811  140 LVYKDPLT 147
Lhr COG1201
Lhr-like helicase [Replication, recombination and repair];
29-100 7.32e-05

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


Pssm-ID: 440814 [Multi-domain]  Cd Length: 850  Bit Score: 45.86  E-value: 7.32e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 556954799  29 KFTHMTPVQSATIPLFMNNKDVAAEAVTGSGKTLA-FVIPILEILLRREDKLKKMQVGAIIITPTRELA--IQIN 100
Cdd:COG1201   21 RFGAPTPPQREAWPAIAAGESTLLIAPTGSGKTLAaFLPALDELARRPRPGELPDGLRVLYISPLKALAndIERN 95
DEXHc_ATRX-like cd18007
DEXH-box helicase domain of ATRX-like proteins; This family includes ATRX-like members such as ...
 57-200 1.05e-03

DEXH-box helicase domain of ATRX-like proteins; This family includes ATRX-like members such as transcriptional regulator ATRX (also called alpha thalassemia/mental retardation syndrome X-linked and X-linked nuclear protein or XNP) which is involved in transcriptional regulation and chromatin remodeling, and ARIP4 (also called androgen receptor-interacting protein 4, RAD54 like 2 or RAD54L2) which modulates androgen receptor (AR)-dependent transactivation in a promoter-dependent manner. They 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: 350765 [Multi-domain]  Cd Length: 239  Bit Score: 41.12  E-value: 1.05e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  57 GSGKTLAfVIPILEILLRREDKLKKmqvgAIIITPTRELAIQINEvlthFNKHFPQFRQILLIGGSNP--------IEDV 128
Cdd:cd18007   36 GLGKTLQ-VITFLHTYLAAAPRRSR----PLVLCPASTLYNWEDE----FKKWLPPDLRPLLVLVSLSaskradarLRKI 106

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799 129 EKFKEHGGNIII-----------ATPGRLEDMFRRKADgldlatCVKTLDVLVLDEADRLLDMGfeASLNTILGYLPKQR 197
Cdd:cd18007  107 NKWHKEGGVLLIgyelfrnlasnATTDPRLKQEFIAAL------LDPGPDLLVLDEGHRLKNEK--SQLSKALSKVKTKR 178


                 ....*.
gi 556954799 198 R---TG 200
Cdd:cd18007  179 RillTG 184
PRK10689 PRK10689
transcription-repair coupling factor; Provisional
 288-374 1.27e-03

transcription-repair coupling factor; Provisional


Pssm-ID: 182649 [Multi-domain]  Cd Length: 1147  Bit Score: 42.04  E-value: 1.27e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799  288 LEGLVKNVKIMCIHGKMKHKR-NKIFTDFRQLESGILVCTDVMARGIDIPEVNWVLQYDPPSSASAFVHRC-GRTARigN 365
Cdd:PRK10689  829 LAELVPEARIAIGHGQMRERElERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLrGRVGR--S 906


                  ....*....
gi 556954799  366 HGSALVFLL 374
Cdd:PRK10689  907 HHQAYAWLL 915
DinG COG1199
Rad3-related DNA helicase DinG [Replication, recombination and repair];
44-117 1.68e-03

Rad3-related DNA helicase DinG [Replication, recombination and repair];


Pssm-ID: 440812 [Multi-domain]  Cd Length: 629  Bit Score: 41.45  E-value: 1.68e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 556954799  44 FMNNKDVAAEAVTGSGKTLAFVIPILEILLRREDKLkkmqvgaIIITPTRELAIQInevlthFNKHFPQFRQIL 117
Cdd:COG1199   30 LAEGRHLLIEAGTGTGKTLAYLVPALLAARETGKKV-------VISTATKALQEQL------VEKDLPLLRKAL 90
TrwB_TraG_TraD_VirD4 cd01127
TrwB/TraG/TraD/VirD4 family of bacterial conjugation proteins; The TraG/TraD/VirD4 family are ...
 56-117 3.76e-03

TrwB/TraG/TraD/VirD4 family of bacterial conjugation proteins; The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion (T4S) systems, versatile bacterial secretion systems mediating transport of protein and/or DNA. They are present in gram-negative and gram-positive bacteria, as well as archaea. They form hexameric rings and belong to the RecA-like NTPases superfamily, which also includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases.


Pssm-ID: 410871 [Multi-domain]  Cd Length: 144  Bit Score: 37.97  E-value: 3.76e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 556954799  56 TGSGKTLAFVIPILEILLRREdklkkmqvGAIIITPTRELAIQINEVLTHFNKHFPQFRQIL 117
Cdd:cd01127    8 TGSGKTTSIVIPLLDQAARGG--------SVIITDPKGELFLVIPDRDDSFAALRALFFNQL 61
ResIII pfam04851
Type III restriction enzyme, res subunit;
56-205 7.49e-03

Type III restriction enzyme, res subunit;


Pssm-ID: 398492 [Multi-domain]  Cd Length: 162  Bit Score: 37.65  E-value: 7.49e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 556954799   56 TGSGKTL--AFVIpileILLRREDKLKKmqvgAIIITPTRELAIQInevLTHFNKHFP-QFRQILLIGGsnpieDVEKFK 132
Cdd:pfam04851  32 TGSGKTLtaAKLI----ARLFKKGPIKK----VLFLVPRKDLLEQA---LEEFKKFLPnYVEIGEIISG-----DKKDES 95

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 556954799  133 EHGGNIIIATPGRLEDMFRRKADGLDLatcvKTLDVLVLDEADRLLDMGFEAslntILGYLPKQRRTGlFSAT 205
Cdd:pfam04851  96 VDDNKIVVTTIQSLYKALELASLELLP----DFFDVIIIDEAHRSGASSYRN----ILEYFKPAFLLG-LTAT 159
 
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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