NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|41327776|ref|NP_957518|]
View 

probable ATP-dependent RNA helicase DDX47 isoform 2 [Homo sapiens]

Protein Classification

DEAD/DEAH box helicase( domain architecture ID 13028754)

DEAD/DEAH box containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA; such as Bacillus cereus ATP-dependent RNA helicase DbpA that is involved in the assembly of the 50S ribosomal subunit

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 25-227 2.90e-155

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: 435.98  E-value: 2.90e-155
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  25 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTREL 104
Cdd:cd17954   1 TFKELGVCEELCEACEKLGWKKPTKIQEEAIPVALQGRDIIGLAETGSGKTAAFALPILQALLENPQRFFALVLAPTREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 105 AFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDF 184
Cdd:cd17954  81 AQQISEQFEALGSSIGLKSAVLVGGMDMMAQAIALAKKPHVIVATPGRLVDHLENTKGFSLKSLKFLVMDEADRLLNMDF 160

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 41327776 185 ETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCA 227
Cdd:cd17954 161 EPEIDKILKVIPRERTTYLFSATMTTKVAKLQRASLKNPVKIE 203
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 251-318 4.21e-36

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: 128.78  E-value: 4.21e-36
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 41327776 251 SKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFV 318
Cdd:cd18787  64 EERERALKKFRSGKVRVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
PRK11057 super family cl47126
ATP-dependent DNA helicase RecQ; Provisional
 267-384 1.55e-03

ATP-dependent DNA helicase RecQ; Provisional


The actual alignment was detected with superfamily member PRK11057:

Pssm-ID: 481466 [Multi-domain]  Cd Length: 607  Bit Score: 40.85  E-value: 1.55e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  267 ILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRiehLIGKKLPGfPTQDDE 346
Cdd:PRK11057 289 IVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLRR---CLEEKPAG-QQQDIE 364

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 41327776  347 VMMLTER--VAEAQRFARMELREH-GEkkkrSREDAGDNDD 384
Cdd:PRK11057 365 RHKLNAMgaFAEAQTCRRLVLLNYfGE----GRQEPCGNCD 401
 
Name Accession Description Interval E-value
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 25-227 2.90e-155

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: 435.98  E-value: 2.90e-155
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  25 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTREL 104
Cdd:cd17954   1 TFKELGVCEELCEACEKLGWKKPTKIQEEAIPVALQGRDIIGLAETGSGKTAAFALPILQALLENPQRFFALVLAPTREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 105 AFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDF 184
Cdd:cd17954  81 AQQISEQFEALGSSIGLKSAVLVGGMDMMAQAIALAKKPHVIVATPGRLVDHLENTKGFSLKSLKFLVMDEADRLLNMDF 160

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 41327776 185 ETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCA 227
Cdd:cd17954 161 EPEIDKILKVIPRERTTYLFSATMTTKVAKLQRASLKNPVKIE 203
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
23-404 2.58e-135

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 393.74  E-value: 2.58e-135
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  23 TKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQR-LFALVLTPT 101
Cdd:COG0513   1 MMSFADLGLSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQRLDPSRPRaPQALILAPT 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 102 RELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILN 181
Cdd:COG0513  81 RELALQVAEELRKLAKYLGLRVATVYGGVSIGRQIRALKRGVDIVVATPGRLLDLIER-GALDLSGVETLVLDEADRMLD 159

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 182 MDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAVSSKYQTVEKLQQYYIFIPSKFK----------- 250
Cdd:COG0513 160 MGFIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPENATAETIEQRYYLVDKRDKlellrrllrde 239

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 251 --------------------------------------SKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIP 292
Cdd:COG0513 240 dperaivfcntkrgadrlaeklqkrgisaaalhgdlsqGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLP 319

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 293 THSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRIEHLIGKKLPgfptqddEVMMLTERVAEAQRFARMElrehGEKK 372
Cdd:COG0513 320 EDPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIEKLIGQKIE-------EEELPGFEPVEEKRLERLK----PKIK 388

                       410       420       430
                ....*....|....*....|....*....|..
gi 41327776 373 KRSREDAGDNDDTEGAIGVRNKvAGGKMKKRK 404
Cdd:COG0513 389 EKLKGKKAGRGGRPGPKGERKA-RRGKRRRRK 419
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
 24-397 1.30e-82

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 259.49  E-value: 1.30e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   24 KTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFA----LVLT 99
Cdd:PRK11192   1 TTFSELELDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGppriLILT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  100 PTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRI 179
Cdd:PRK11192  81 PTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEEN-FDCRAVETLILDEADRM 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  180 LNMDFETEVDKIlKVIPRDRK-TFLFSATMT-KKVQKLQRAALKNPVKCAVSSKYQTVEKLQQYY--------------- 242
Cdd:PRK11192 160 LDMGFAQDIETI-AAETRWRKqTLLFSATLEgDAVQDFAERLLNDPVEVEAEPSRRERKKIHQWYyraddlehktallch 238

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  243 -----------IF------------------IPSKF------KSKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVV 287
Cdd:PRK11192 239 llkqpevtrsiVFvrtrervhelagwlrkagINCCYlegemvQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVSHVI 318

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  288 NFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRIEHLIGKKL-PGF-----PTQDDEVMMLTERVAEAQRFA 361
Cdd:PRK11192 319 NFDMPRSADTYLHRIGRTGRAGRKGTAISLVEAHDHLLLGKIERYIEEPLkARVidelrPKTKAPSEKKTGKPSKKVLAK 398

                        410       420       430
                 ....*....|....*....|....*....|....*.
gi 41327776  362 RMELREHGEKKKRSREDAGDNDdtegAIGVRNKVAG 397
Cdd:PRK11192 399 RAEKKEKEKEKPKVKKRHRDTK----NIGKRRKPSG 430
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 48-215 7.13e-61

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: 194.38  E-value: 7.13e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776    48 TKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIV 127
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPQALVLAPTRELAEQIYEELKKLGKGLGLKVASLL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   128 GGiDSMSQSLALAKKPHIIIATPGRLIDHLENTKgfNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSAT 207
Cdd:pfam00270  81 GG-DSRKEQLEKLKGPDILVGTPGRLLDLLQERK--LLKNLKLLVLDEAHRLLDMGFGPDLEEILRRLPKKRQILLLSAT 157


                  ....*...
gi 41327776   208 MTKKVQKL 215
Cdd:pfam00270 158 LPRNLEDL 165
DEXDc smart00487
DEAD-like helicases superfamily;
41-241 1.35e-51

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 171.52  E-value: 1.35e-51
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776     41 QLGWTKPTKIQIEAIPLALQG-RDIIGLAETGSGKTGAFALPILNALLETPQRlFALVLTPTRELAFQISEQFEALGSSI 119
Cdd:smart00487   3 KFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKRGKGG-RVLVLVPTRELAEQWAEELKKLGPSL 81

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776    120 GVQSAVIVGGIDSMSQSLALAK-KPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRD 198
Cdd:smart00487  82 GLKVVGLYGGDSKREQLRKLESgKTDILVTTPGRLLDLLEN-DKLSLSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKN 160

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|...
gi 41327776    199 RKTFLFSATMTKKVQKLQRAALKNPVKcaVSSKYQTVEKLQQY 241
Cdd:smart00487 161 VQLLLLSATPPEEIENLLELFLNDPVF--IDVGFTPLEPIEQF 201
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 251-318 4.21e-36

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: 128.78  E-value: 4.21e-36
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 41327776 251 SKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFV 318
Cdd:cd18787  64 EERERALKKFRSGKVRVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 250-309 3.05e-20

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: 85.34  E-value: 3.05e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   250 KSKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAG 309
Cdd:pfam00271  50 QEEREEILEDFRKGKIDVLVATDVAERGLDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
HELICc smart00490
helicase superfamily c-terminal domain;
250-309 5.96e-18

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 78.02  E-value: 5.96e-18
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776    250 KSKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAG 309
Cdd:smart00490  23 QEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
252-319 1.90e-08

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


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 56.28  E-value: 1.90e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 41327776 252 KRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFD-IPTHSKdYIHRVGRTARaGRSGKAITFVT 319
Cdd:COG1111 399 EQIEILERFRAGEFNVLVATSVAEEGLDIPEVDLVIFYEpVPSEIR-SIQRKGRTGR-KREGRVVVLIA 465
PRK13766 PRK13766
Hef nuclease; Provisional
 257-320 1.76e-06

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 50.26  E-value: 1.76e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 41327776  257 LNKFKAKARSILLATDVASRGLDIPHVDVVVNFD-IPTHSKdYIHRVGRTARaGRSGKAITFVTQ 320
Cdd:PRK13766 416 LDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEpVPSEIR-SIQRKGRTGR-QEEGRVVVLIAK 478
PRK11057 PRK11057
ATP-dependent DNA helicase RecQ; Provisional
 267-384 1.55e-03

ATP-dependent DNA helicase RecQ; Provisional


Pssm-ID: 182933 [Multi-domain]  Cd Length: 607  Bit Score: 40.85  E-value: 1.55e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  267 ILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRiehLIGKKLPGfPTQDDE 346
Cdd:PRK11057 289 IVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLRR---CLEEKPAG-QQQDIE 364

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 41327776  347 VMMLTER--VAEAQRFARMELREH-GEkkkrSREDAGDNDD 384
Cdd:PRK11057 365 RHKLNAMgaFAEAQTCRRLVLLNYfGE----GRQEPCGNCD 401
 
Name Accession Description Interval E-value
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 25-227 2.90e-155

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: 435.98  E-value: 2.90e-155
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  25 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTREL 104
Cdd:cd17954   1 TFKELGVCEELCEACEKLGWKKPTKIQEEAIPVALQGRDIIGLAETGSGKTAAFALPILQALLENPQRFFALVLAPTREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 105 AFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDF 184
Cdd:cd17954  81 AQQISEQFEALGSSIGLKSAVLVGGMDMMAQAIALAKKPHVIVATPGRLVDHLENTKGFSLKSLKFLVMDEADRLLNMDF 160

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 41327776 185 ETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCA 227
Cdd:cd17954 161 EPEIDKILKVIPRERTTYLFSATMTTKVAKLQRASLKNPVKIE 203
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
23-404 2.58e-135

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


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 393.74  E-value: 2.58e-135
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  23 TKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQR-LFALVLTPT 101
Cdd:COG0513   1 MMSFADLGLSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQRLDPSRPRaPQALILAPT 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 102 RELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILN 181
Cdd:COG0513  81 RELALQVAEELRKLAKYLGLRVATVYGGVSIGRQIRALKRGVDIVVATPGRLLDLIER-GALDLSGVETLVLDEADRMLD 159

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 182 MDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAVSSKYQTVEKLQQYYIFIPSKFK----------- 250
Cdd:COG0513 160 MGFIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPENATAETIEQRYYLVDKRDKlellrrllrde 239

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 251 --------------------------------------SKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIP 292
Cdd:COG0513 240 dperaivfcntkrgadrlaeklqkrgisaaalhgdlsqGQRERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLP 319

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 293 THSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRIEHLIGKKLPgfptqddEVMMLTERVAEAQRFARMElrehGEKK 372
Cdd:COG0513 320 EDPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIEKLIGQKIE-------EEELPGFEPVEEKRLERLK----PKIK 388

                       410       420       430
                ....*....|....*....|....*....|..
gi 41327776 373 KRSREDAGDNDDTEGAIGVRNKvAGGKMKKRK 404
Cdd:COG0513 389 EKLKGKKAGRGGRPGPKGERKA-RRGKRRRRK 419
DEADc_DDX49 cd17955
DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the ...
 26-227 1.65e-93

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: 279.49  E-value: 1.65e-93
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  26 FKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELA 105
Cdd:cd17955   1 FEDLGLSSWLVKQCASLGIKEPTPIQKLCIPEILAGRDVIGGAKTGSGKTAAFALPILQRLSEDPYGIFALVLTPTRELA 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 106 FQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKG--FNLRALKYLVMDEADRILNMD 183
Cdd:cd17955  81 YQIAEQFRALGAPLGLRCCVIVGGMDMVKQALELSKRPHIVVATPGRLADHLRSSDDttKVLSRVKFLVLDEADRLLTGS 160

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....
gi 41327776 184 FETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCA 227
Cdd:cd17955 161 FEDDLATILSALPPKRQTLLFSATLTDALKALKELFGNKPFFWE 204
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 35-225 8.32e-91

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: 272.01  E-value: 8.32e-91
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  35 LCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLF----ALVLTPTRELAFQISE 110
Cdd:cd00268   1 LLKALKKLGFEKPTPIQAQAIPLILSGRDVIGQAQTGSGKTLAFLLPILEKLLPEPKKKGrgpqALVLAPTRELAMQIAE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 111 QFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRILNMDFETEVDK 190
Cdd:cd00268  81 VARKLGKGTGLKVAAIYGGAPIKKQIEALKKGPDIVVGTPGRLLDLIERGK-LDLSNVKYLVLDEADRMLDMGFEEDVEK 159

                       170       180       190
                ....*....|....*....|....*....|....*
gi 41327776 191 ILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVK 225
Cdd:cd00268 160 ILSALPKDRQTLLFSATLPEEVKELAKKFLKNPVR 194
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
 24-397 1.30e-82

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 259.49  E-value: 1.30e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   24 KTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFA----LVLT 99
Cdd:PRK11192   1 TTFSELELDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGppriLILT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  100 PTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRI 179
Cdd:PRK11192  81 PTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEEN-FDCRAVETLILDEADRM 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  180 LNMDFETEVDKIlKVIPRDRK-TFLFSATMT-KKVQKLQRAALKNPVKCAVSSKYQTVEKLQQYY--------------- 242
Cdd:PRK11192 160 LDMGFAQDIETI-AAETRWRKqTLLFSATLEgDAVQDFAERLLNDPVEVEAEPSRRERKKIHQWYyraddlehktallch 238

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  243 -----------IF------------------IPSKF------KSKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVV 287
Cdd:PRK11192 239 llkqpevtrsiVFvrtrervhelagwlrkagINCCYlegemvQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVSHVI 318

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  288 NFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRIEHLIGKKL-PGF-----PTQDDEVMMLTERVAEAQRFA 361
Cdd:PRK11192 319 NFDMPRSADTYLHRIGRTGRAGRKGTAISLVEAHDHLLLGKIERYIEEPLkARVidelrPKTKAPSEKKTGKPSKKVLAK 398

                        410       420       430
                 ....*....|....*....|....*....|....*.
gi 41327776  362 RMELREHGEKKKRSREDAGDNDdtegAIGVRNKVAG 397
Cdd:PRK11192 399 RAEKKEKEKEKPKVKKRHRDTK----NIGKRRKPSG 430
PTZ00110 PTZ00110
helicase; Provisional
 25-319 4.39e-78

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 251.23  E-value: 4.39e-78
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   25 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPIL-----NALLETPQRLFALVLT 99
Cdd:PTZ00110 131 SFEYTSFPDYILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIvhinaQPLLRYGDGPIVLVLA 210

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  100 PTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGfNLRALKYLVMDEADRI 179
Cdd:PTZ00110 211 PTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYALRRGVEILIACPGRLIDFLESNVT-NLRRVTYLVLDEADRM 289

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  180 LNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKN-PVKCAVSS-KYQTVEKLQQYYIFIPSKFKSKRLGS- 256
Cdd:PTZ00110 290 LDMGFEPQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEePVHVNVGSlDLTACHNIKQEVFVVEEHEKRGKLKMl 369

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  257 --------------------------------------------------LNKFKAKARSILLATDVASRGLDIPHVDVV 286
Cdd:PTZ00110 370 lqrimrdgdkilifvetkkgadfltkelrldgwpalcihgdkkqeertwvLNEFKTGKSPIMIATDVASRGLDVKDVKYV 449

                        330       340       350
                 ....*....|....*....|....*....|...
gi 41327776  287 VNFDIPTHSKDYIHRVGRTARAGRSGKAITFVT 319
Cdd:PTZ00110 450 INFDFPNQIEDYVHRIGRTGRAGAKGASYTFLT 482
DEADc_DDX27 cd17947
DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ...
 35-225 3.38e-77

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: 237.54  E-value: 3.38e-77
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  35 LCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLF---ALVLTPTRELAFQISEQ 111
Cdd:cd17947   1 LLRALSSLGFTKPTPIQAAAIPLALLGKDICASAVTGSGKTAAFLLPILERLLYRPKKKAatrVLVLVPTRELAMQCFSV 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 112 FEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKI 191
Cdd:cd17947  81 LQQLAQFTDITFALAVGGLSLKAQEAALRARPDIVIATPGRLIDHLRNSPSFDLDSIEILVLDEADRMLEEGFADELKEI 160

                       170       180       190
                ....*....|....*....|....*....|....
gi 41327776 192 LKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVK 225
Cdd:cd17947 161 LRLCPRTRQTMLFSATMTDEVKDLAKLSLNKPVR 194
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 40-337 1.08e-73

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 237.01  E-value: 1.08e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   40 DQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSI 119
Cdd:PRK11776  20 NELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLARFI 99

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  120 -GVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLEntKG-FNLRALKYLVMDEADRILNMDFETEVDKILKVIPR 197
Cdd:PRK11776 100 pNIKVLTLCGGVPMGPQIDSLEHGAHIIVGTPGRILDHLR--KGtLDLDALNTLVLDEADRMLDMGFQDAIDAIIRQAPA 177

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  198 DRKTFLFSATMTKKVQKLQRAALKNPVKCAVSSKYQTvEKLQQYYIFIPSKFKSKRLGSL-------------N------ 258
Cdd:PRK11776 178 RRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTHDL-PAIEQRFYEVSPDERLPALQRLllhhqpescvvfcNtkkecq 256

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  259 ------------------------------KFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARA 308
Cdd:PRK11776 257 evadalnaqgfsalalhgdleqrdrdqvlvRFANRSCSVLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRA 336

                        330       340
                 ....*....|....*....|....*....
gi 41327776  309 GRSGKAITFVTQYDVELFQRIEHLIGKKL 337
Cdd:PRK11776 337 GSKGLALSLVAPEEMQRANAIEDYLGRKL 365
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
 20-338 4.60e-72

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 237.44  E-value: 4.60e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   20 EEETkTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNAL---LETPQrlfAL 96
Cdd:PRK11634   3 EFET-TFADLGLKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLdpeLKAPQ---IL 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   97 VLTPTRELAFQISEQFEALGSSI-GVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKgFNLRALKYLVMDE 175
Cdd:PRK11634  79 VLAPTRELAVQVAEAMTDFSKHMrGVNVVALYGGQRYDVQLRALRQGPQIVVGTPGRLLDHLKRGT-LDLSKLSGLVLDE 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  176 ADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAVSSKYQTVEKLQQYY------------- 242
Cdd:PRK11634 158 ADEMLRMGFIEDVETIMAQIPEGHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQSYwtvwgmrknealv 237

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  243 ------------IFIPSK--------------FKSKRLG----------SLNKFKAKARSILLATDVASRGLDIPHVDVV 286
Cdd:PRK11634 238 rfleaedfdaaiIFVRTKnatlevaealerngYNSAALNgdmnqalreqTLERLKDGRLDILIATDVAARGLDVERISLV 317

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|..
gi 41327776  287 VNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRIEHLIGKKLP 338
Cdd:PRK11634 318 VNYDIPMDSESYVHRIGRTGRAGRAGRALLFVENRERRLLRNIERTMKLTIP 369
DEADc_DDX23 cd17945
DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and ...
 35-224 1.23e-64

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: 206.02  E-value: 1.23e-64
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  35 LCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRL--------FALVLTPTRELAF 106
Cdd:cd17945   1 LLRVIRKLGYKEPTPIQRQAIPIGLQNRDIIGIAETGSGKTAAFLIPLLVYISRLPPLDeetkddgpYALILAPTRELAQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 107 QISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFET 186
Cdd:cd17945  81 QIEEETQKFAKPLGIRVVSIVGGHSIEEQAFSLRNGCEILIATPGRLLDCLER-RLLVLNQCTYVVLDEADRMIDMGFEP 159

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 41327776 187 EVDKILKVIP--------------------RDRKTFLFSATMTKKVQKLQRAALKNPV 224
Cdd:cd17945 160 QVTKILDAMPvsnkkpdteeaeklaasgkhRYRQTMMFTATMPPAVEKIAKGYLRRPV 217
DEADc_DDX3_DDX4 cd17967
DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes ...
 25-222 6.46e-64

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: 204.26  E-value: 6.46e-64
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  25 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRL----------F 94
Cdd:cd17967   1 SFEEAGLRELLLENIKRAGYTKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPIISKLLEDGPPSvgrgrrkaypS 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  95 ALVLTPTRELAFQISEQ---FeALGSsiGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKgFNLRALKYL 171
Cdd:cd17967  81 ALILAPTRELAIQIYEEarkF-SYRS--GVRSVVVYGGADVVHQQLQLLRGCDILVATPGRLVDFIERGR-ISLSSIKFL 156

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*
gi 41327776 172 VMDEADRILNMDFETEVDKILK----VIPRDRKTFLFSATMTKKVQKLQRAALKN 222
Cdd:cd17967 157 VLDEADRMLDMGFEPQIRKIVEhpdmPPKGERQTLMFSATFPREIQRLAADFLKN 211
PRK10590 PRK10590
ATP-dependent RNA helicase RhlE; Provisional
 25-338 1.42e-63

ATP-dependent RNA helicase RhlE; Provisional


Pssm-ID: 236722 [Multi-domain]  Cd Length: 456  Bit Score: 210.82  E-value: 1.42e-63
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   25 TFKDLGVT-DVLCEACDQlGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQR------LFALV 97
Cdd:PRK10590   2 SFDSLGLSpDILRAVAEQ-GYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHakgrrpVRALI 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   98 LTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDhLENTKGFNLRALKYLVMDEAD 177
Cdd:PRK10590  81 LTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMKLRGGVDVLVATPGRLLD-LEHQNAVKLDQVEILVLDEAD 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  178 RILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAVSSKYQTVEKLQQYYIFIPSKFKSKRLG-- 255
Cdd:PRK10590 160 RMLDMGFIHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQVTQHVHFVDKKRKRELLSqm 239

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  256 ------------------------SLNK-----------------------FKAKARSILLATDVASRGLDIPHVDVVVN 288
Cdd:PRK10590 240 igkgnwqqvlvftrtkhganhlaeQLNKdgirsaaihgnksqgartraladFKSGDIRVLVATDIAARGLDIEELPHVVN 319

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|
gi 41327776  289 FDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRIEHLIGKKLP 338
Cdd:PRK10590 320 YELPNVPEDYVHRIGRTGRAAATGEALSLVCVDEHKLLRDIEKLLKKEIP 369
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
 25-406 6.80e-63

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 211.73  E-value: 6.80e-63
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   25 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALL-------ETPQRLFALV 97
Cdd:PRK04537  10 TFSSFDLHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLsrpaladRKPEDPRALI 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   98 LTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEAD 177
Cdd:PRK04537  90 LAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQRELLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICVLDEAD 169

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  178 RILNMDFETEVDKILKVIPR--DRKTFLFSATMTKKVQKLQRAALKNPVKCAVSSKYQTVEKLQQ--YY----------- 242
Cdd:PRK04537 170 RMFDLGFIKDIRFLLRRMPErgTRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAARVRQriYFpadeekqtlll 249

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  243 ------------IFIPSKF------------------------KSKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVV 286
Cdd:PRK04537 250 gllsrsegartmVFVNTKAfvervartlerhgyrvgvlsgdvpQKKRESLLNRFQKGQLEILVATDVAARGLHIDGVKYV 329

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  287 VNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRIEHLIGKKLPGFPTQDDEVMML--TERVAEAQRFARME 364
Cdd:PRK04537 330 YNYDLPFDAEDYVHRIGRTARLGEEGDAISFACERYAMSLPDIEAYIEQKIPVEPVTAELLTPLprPPRVPVEGEEADDE 409

                        410       420       430       440
                 ....*....|....*....|....*....|....*....|...
gi 41327776  365 LREH-GEKKKRSREDAGDNDDTEGaiGVRNKVAGGKMKKRKGR 406
Cdd:PRK04537 410 AGDSvGTIFREAREQRAAEEQRRG--GGRSGPGGGSRSGSVGG 450
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 17-337 3.58e-62

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 207.46  E-value: 3.58e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   17 IVEEEETKT-FKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETP---QR 92
Cdd:PRK01297  79 VVEPQEGKTrFHDFNLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPppkER 158

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   93 LF----ALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLAL-AKKPHIIIATPGRLIDHLENtKGFNLRA 167
Cdd:PRK01297 159 YMgeprALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQLKQLeARFCDILVATPGRLLDFNQR-GEVHLDM 237

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  168 LKYLVMDEADRILNMDFETEVDKILKVIPR--DRKTFLFSATMTKKVQKLQRAALKNPVKCAVSSKYQTVEKLQQ--YYI 243
Cdd:PRK01297 238 VEVMVLDEADRMLDMGFIPQVRQIIRQTPRkeERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQhvYAV 317

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  244 FIPSKFK-----------------------------------------------SKRLGSLNKFKAKARSILLATDVASR 276
Cdd:PRK01297 318 AGSDKYKllynlvtqnpwervmvfanrkdevrrieerlvkdginaaqlsgdvpqHKRIKTLEGFREGKIRVLVATDVAGR 397

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 41327776  277 GLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRIEHLIGKKL 337
Cdd:PRK01297 398 GIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISFAGEDDAFQLPEIEELLGRKI 458
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
 33-224 8.30e-62

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: 198.19  E-value: 8.30e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  33 DVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLE------TPQRLFALVLTPTRELAF 106
Cdd:cd17961   3 PRLLKAIAKLGWEKPTLIQSKAIPLALEGKDILARARTGSGKTAAYALPIIQKILKakaesgEEQGTRALILVPTRELAQ 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 107 QISEQFEALGSSIG--VQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDF 184
Cdd:cd17961  83 QVSKVLEQLTAYCRkdVRVVNLSASSSDSVQRALLAEKPDIVVSTPARLLSHLESGSLLLLSTLKYLVIDEADLVLSYGY 162

                       170       180       190       200
                ....*....|....*....|....*....|....*....|
gi 41327776 185 ETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPV 224
Cdd:cd17961 163 EEDLKSLLSYLPKNYQTFLMSATLSEDVEALKKLVLHNPA 202
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 48-215 7.13e-61

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: 194.38  E-value: 7.13e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776    48 TKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIV 127
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPQALVLAPTRELAEQIYEELKKLGKGLGLKVASLL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   128 GGiDSMSQSLALAKKPHIIIATPGRLIDHLENTKgfNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSAT 207
Cdd:pfam00270  81 GG-DSRKEQLEKLKGPDILVGTPGRLLDLLQERK--LLKNLKLLVLDEAHRLLDMGFGPDLEEILRRLPKKRQILLLSAT 157


                  ....*...
gi 41327776   208 MTKKVQKL 215
Cdd:pfam00270 158 LPRNLEDL 165
DEADc_DDX5_DDX17 cd17966
DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are ...
 41-225 1.60e-59

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: 192.20  E-value: 1.60e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  41 QLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPIL-----NALLETPQRLFALVLTPTRELAFQISEQFEAL 115
Cdd:cd17966   7 RQGFTEPTAIQAQGWPMALSGRDMVGIAQTGSGKTLAFLLPAIvhinaQPPLERGDGPIVLVLAPTRELAQQIQQEANKF 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 116 GSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGfNLRALKYLVMDEADRILNMDFETEVDKILKVI 195
Cdd:cd17966  87 GGSSRLRNTCVYGGAPKGPQIRDLRRGVEICIATPGRLIDFLDQGKT-NLRRVTYLVLDEADRMLDMGFEPQIRKIVDQI 165

                       170       180       190
                ....*....|....*....|....*....|
gi 41327776 196 PRDRKTFLFSATMTKKVQKLQRAALKNPVK 225
Cdd:cd17966 166 RPDRQTLMWSATWPKEVRRLAEDFLKDYIQ 195
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
 23-338 4.27e-59

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 197.89  E-value: 4.27e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   23 TKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQ---------Rl 93
Cdd:PRK04837   7 EQKFSDFALHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPApedrkvnqpR- 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   94 fALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENtKGFNLRALKYLVM 173
Cdd:PRK04837  86 -ALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQ-NHINLGAIQVVVL 163

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  174 DEADRILNMDFETEVDKILKVIP--RDRKTFLFSATMTKKVQKLQRAALKNPVKCAVSSKYQTVEKLQQyYIFIPS---K 248
Cdd:PRK04837 164 DEADRMFDLGFIKDIRWLFRRMPpaNQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTGHRIKE-ELFYPSneeK 242

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  249 FK-----------------------------------------------SKRLGSLNKFKAKARSILLATDVASRGLDIP 281
Cdd:PRK04837 243 MRllqtlieeewpdraiifantkhrceeiwghlaadghrvglltgdvaqKKRLRILEEFTRGDLDILVATDVAARGLHIP 322

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 41327776  282 HVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFV-TQYDVELfQRIEHLIGKKLP 338
Cdd:PRK04837 323 AVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSISLAcEEYALNL-PAIETYIGHSIP 379
DEADc_DDX10 cd17941
DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin ...
 43-224 1.47e-58

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: 189.42  E-value: 1.47e-58
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  43 GWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLE---TPQR-LFALVLTPTRELAFQISEQFEALGSS 118
Cdd:cd17941   9 GFIKMTEIQRDSIPHALQGRDILGAAKTGSGKTLAFLVPLLEKLYRerwTPEDgLGALIISPTRELAMQIFEVLRKVGKY 88

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 119 IGVQSAVIVGGIDSMSQSLALAKKpHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRD 198
Cdd:cd17941  89 HSFSAGLIIGGKDVKEEKERINRM-NILVCTPGRLLQHMDETPGFDTSNLQMLVLDEADRILDMGFKETLDAIVENLPKS 167

                       170       180
                ....*....|....*....|....*.
gi 41327776 199 RKTFLFSATMTKKVQKLQRAALKNPV 224
Cdd:cd17941 168 RQTLLFSATQTKSVKDLARLSLKNPE 193
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 25-226 2.18e-58

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: 189.44  E-value: 2.18e-58
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  25 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQR--LFALVLTPTR 102
Cdd:cd17959   2 GFQSMGLSPPLLRAIKKKGYKVPTPIQRKTIPLILDGRDVVAMARTGSGKTAAFLIPMIEKLKAHSPTvgARALILSPTR 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 103 ELAFQISEQFEALGSSIGVQSAVIVGGiDSM-SQSLALAKKPHIIIATPGRLIDHLENTkGFNLRALKYLVMDEADRILN 181
Cdd:cd17959  82 ELALQTLKVTKELGKFTDLRTALLVGG-DSLeEQFEALASNPDIIIATPGRLLHLLVEM-NLKLSSVEYVVFDEADRLFE 159

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*
gi 41327776 182 MDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKC 226
Cdd:cd17959 160 MGFAEQLHEILSRLPENRQTLLFSATLPKLLVEFAKAGLNEPVLI 204
DEADc_DDX24 cd17946
DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box ...
 42-239 3.88e-56

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: 184.36  E-value: 3.88e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  42 LGWTKPTKIQIEAIPLAL-QGRDIIGLAETGSGKTGAFALPILNALLE--------TPQR-LFALVLTPTRELAFQISEQ 111
Cdd:cd17946   8 LGFSEPTPIQALALPAAIrDGKDVIGAAETGSGKTLAFGIPILERLLSqkssngvgGKQKpLRALILTPTRELAVQVKDH 87

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 112 FEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGF--NLRALKYLVMDEADRIL-NMDFEtEV 188
Cdd:cd17946  88 LKAIAKYTNIKIASIVGGLAVQKQERLLKKRPEIVVATPGRLWELIQEGNEHlaNLKSLRFLVLDEADRMLeKGHFA-EL 166

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 41327776 189 DKILKVIPRD-------RKTFLFSATMTKKVQklQRAALKNPVKcavSSKYQTVEKLQ 239
Cdd:cd17946 167 EKILELLNKDragkkrkRQTFVFSATLTLDHQ--LPLKLNSKKK---KKKKEKKQKLE 219
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
 38-223 1.66e-55

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: 181.79  E-value: 1.66e-55
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  38 ACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALP---ILNALLETPQR-LFALVLTPTRELAFQISEQFE 113
Cdd:cd17942   4 AIEEMGFTKMTEIQAKSIPPLLEGRDVLGAAKTGSGKTLAFLIPaieLLYKLKFKPRNgTGVIIISPTRELALQIYGVAK 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 114 ALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILK 193
Cdd:cd17942  84 ELLKYHSQTFGIVIGGANRKAEAEKLGKGVNILVATPGRLLDHLQNTKGFLYKNLQCLIIDEADRILEIGFEEEMRQIIK 163

                       170       180       190
                ....*....|....*....|....*....|
gi 41327776 194 VIPRDRKTFLFSATMTKKVQKLQRAALKNP 223
Cdd:cd17942 164 LLPKRRQTMLFSATQTRKVEDLARISLKKK 193
DEADc_DDX31 cd17949
DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) ...
 42-224 9.26e-55

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: 180.09  E-value: 9.26e-55
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  42 LGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRL------FALVLTPTRELAFQISEQFEAL 115
Cdd:cd17949   9 MGIEKPTAIQKLAIPVLLQGRDVLVRSQTGSGKTLAYLLPIIQRLLSLEPRVdrsdgtLALVLVPTRELALQIYEVLEKL 88

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 116 GS-SIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKV 194
Cdd:cd17949  89 LKpFHWIVPGYLIGGEKRKSEKARLRKGVNILIATPGRLLDHLKNTQSFDVSNLRWLVLDEADRLLDMGFEKDITKILEL 168

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 41327776 195 I-------------PRDRKTFLFSATMTKKVQKLQRAALKNPV 224
Cdd:cd17949 169 LddkrskaggekskPSRRQTVLVSATLTDGVKRLAGLSLKDPV 211
DEADc_DDX46 cd17953
DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) ...
 24-226 1.76e-53

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: 177.18  E-value: 1.76e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  24 KTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETP-----QRLFALVL 98
Cdd:cd17953  12 QKWSQCGLSEKVLDLIKKLGYEKPTPIQAQALPAIMSGRDVIGIAKTGSGKTLAFLLPMFRHIKDQRpvkpgEGPIGLIM 91

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  99 TPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHL--ENTKGFNLRALKYLVMDEA 176
Cdd:cd17953  92 APTRELALQIYVECKKFSKALGLRVVCVYGGSGISEQIAELKRGAEIVVCTPGRMIDILtaNNGRVTNLRRVTYVVLDEA 171

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|
gi 41327776 177 DRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKC 226
Cdd:cd17953 172 DRMFDMGFEPQIMKIVNNIRPDRQTVLFSATFPRKVEALARKVLHKPIEI 221
DEADc_DDX41 cd17951
DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts ...
 46-224 3.25e-53

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: 175.99  E-value: 3.25e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  46 KPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRL--------FALVLTPTRELA---FQISEQF-E 113
Cdd:cd17951  12 KPTPIQMQGLPTILSGRDMIGIAFTGSGKTLVFTLPLIMFALEQEKKLpfikgegpYGLIVCPSRELArqtHEVIEYYcK 91

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 114 AL--GSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLeNTKGFNLRALKYLVMDEADRILNMDFETEVDKI 191
Cdd:cd17951  92 ALqeGGYPQLRCLLCIGGMSVKEQLEVIRKGVHIVVATPGRLMDML-NKKKINLDICRYLCLDEADRMIDMGFEEDIRTI 170

                       170       180       190
                ....*....|....*....|....*....|...
gi 41327776 192 LKVIPRDRKTFLFSATMTKKVQKLQRAALKNPV 224
Cdd:cd17951 171 FSYFKGQRQTLLFSATMPKKIQNFAKSALVKPV 203
PTZ00424 PTZ00424
helicase 45; Provisional
 1-330 1.24e-52

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 180.41  E-value: 1.24e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776    1 MAAPEE-HDSPTEASQPIVE---EEETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTG 76
Cdd:PTZ00424   1 MATSEQkNQSEQVASTGTIEsnyDEIVDSFDALKLNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   77 AF---ALPILNALLETPQrlfALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRL 153
Cdd:PTZ00424  81 TFviaALQLIDYDLNACQ---ALILAPTRELAQQIQKVVLALGDYLKVRCHACVGGTVVRDDINKLKAGVHMVVGTPGRV 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  154 IDHLENtKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAVSSKYQ 233
Cdd:PTZ00424 158 YDMIDK-RHLRVDDLKLFILDEADEMLSRGFKGQIYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKDEL 236

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  234 TVEKLQQYYIFIPS---KFKS--------------------KRLGSLNK---------------------------FKAK 263
Cdd:PTZ00424 237 TLEGIRQFYVAVEKeewKFDTlcdlyetltitqaiiycntrRKVDYLTKkmherdftvscmhgdmdqkdrdlimreFRSG 316

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 41327776  264 ARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRIE 330
Cdd:PTZ00424 317 STRVLITTDLLARGIDVQQVSLVINYDLPASPENYIHRIGRSGRFGRKGVAINFVTPDDIEQLKEIE 383
DEADc_DDX42 cd17952
DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor ...
 35-225 1.96e-52

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: 173.76  E-value: 1.96e-52
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  35 LCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRL-----FALVLTPTRELAFQIS 109
Cdd:cd17952   1 LLNAIRKQEYEQPTPIQAQALPVALSGRDMIGIAKTGSGKTAAFIWPMLVHIMDQRELEkgegpIAVIVAPTRELAQQIY 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 110 EQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLEnTKGFNLRALKYLVMDEADRILNMDFETEVD 189
Cdd:cd17952  81 LEAKKFGKAYNLRVVAVYGGGSKWEQAKALQEGAEIVVATPGRLIDMVK-KKATNLQRVTYLVLDEADRMFDMGFEYQVR 159

                       170       180       190
                ....*....|....*....|....*....|....*.
gi 41327776 190 KILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVK 225
Cdd:cd17952 160 SIVGHVRPDRQTLLFSATFKKKIEQLARDILSDPIR 195
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 37-225 2.70e-52

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: 173.53  E-value: 2.70e-52
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  37 EACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALL-----ETPQRLFALVLTPTRELAFQISEQ 111
Cdd:cd17960   3 DVVAELGFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLEILLkrkanLKKGQVGALIISPTRELATQIYEV 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 112 FEALGSSIG--VQSAVIVGGIDSMSQSLAL-AKKPHIIIATPGRLIDHLENTKG-FNLRALKYLVMDEADRILNMDFETE 187
Cdd:cd17960  83 LQSFLEHHLpkLKCQLLIGGTNVEEDVKKFkRNGPNILVGTPGRLEELLSRKADkVKVKSLEVLVLDEADRLLDLGFEAD 162

                       170       180       190
                ....*....|....*....|....*....|....*...
gi 41327776 188 VDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVK 225
Cdd:cd17960 163 LNRILSKLPKQRRTGLFSATQTDAVEELIKAGLRNPVR 200
DEADc_MSS116 cd17964
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for ...
 31-221 8.58e-52

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: 172.38  E-value: 8.58e-52
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  31 VTDVLCEACDQLGWTKPTKIQIEAIPLALQ-GRDIIGLAETGSGKTGAFALPILNALLETPQRL-----FALVLTPTREL 104
Cdd:cd17964   1 LDPSLLKALTRMGFETMTPVQQKTLKPILStGDDVLARAKTGTGKTLAFLLPAIQSLLNTKPAGrrsgvSALIISPTREL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 105 AFQISEQFEAL---GSSIGVQSAVivGGIDSMSQSLALAK-KPHIIIATPGRLIDHLENTKGFN-LRALKYLVMDEADRI 179
Cdd:cd17964  81 ALQIAAEAKKLlqgLRKLRVQSAV--GGTSRRAELNRLRRgRPDILVATPGRLIDHLENPGVAKaFTDLDYLVLDEADRL 158

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*.
gi 41327776 180 LNMDFETEVDKILKVIP----RDRKTFLFSATMTKKVQKLQRAALK 221
Cdd:cd17964 159 LDMGFRPDLEQILRHLPeknaDPRQTLLFSATVPDEVQQIARLTLK 204
DEXDc smart00487
DEAD-like helicases superfamily;
41-241 1.35e-51

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 171.52  E-value: 1.35e-51
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776     41 QLGWTKPTKIQIEAIPLALQG-RDIIGLAETGSGKTGAFALPILNALLETPQRlFALVLTPTRELAFQISEQFEALGSSI 119
Cdd:smart00487   3 KFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKRGKGG-RVLVLVPTRELAEQWAEELKKLGPSL 81

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776    120 GVQSAVIVGGIDSMSQSLALAK-KPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRD 198
Cdd:smart00487  82 GLKVVGLYGGDSKREQLRKLESgKTDILVTTPGRLLDLLEN-DKLSLSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKN 160

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|...
gi 41327776    199 RKTFLFSATMTKKVQKLQRAALKNPVKcaVSSKYQTVEKLQQY 241
Cdd:smart00487 161 VQLLLLSATPPEEIENLLELFLNDPVF--IDVGFTPLEPIEQF 201
DEADc_DDX52 cd17957
DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ...
 43-228 7.60e-51

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: 169.69  E-value: 7.60e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  43 GWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQR--LFALVLTPTRELAFQISEQFEALGSSIG 120
Cdd:cd17957   9 GYREPTPIQMQAIPILLHGRDLLACAPTGSGKTLAFLIPILQKLGKPRKKkgLRALILAPTRELASQIYRELLKLSKGTG 88

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 121 VQSAVIVGGI-DSMSQSLALAKKPHIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRILNMDFETEVDKILKVI--PR 197
Cdd:cd17957  89 LRIVLLSKSLeAKAKDGPKSITKYDILVSTPLRLVFLLKQGP-IDLSSVEYLVLDEADKLFEPGFREQTDEILAACtnPN 167

                       170       180       190
                ....*....|....*....|....*....|.
gi 41327776 198 DRKTFlFSATMTKKVQKLQRAALKNPVKCAV 228
Cdd:cd17957 168 LQRSL-FSATIPSEVEELARSVMKDPIRIIV 197
DEADc_DDX6 cd17940
DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or ...
 26-225 8.14e-50

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


Pssm-ID: 350698 [Multi-domain]  Cd Length: 201  Bit Score: 167.09  E-value: 8.14e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  26 FKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELA 105
Cdd:cd17940   1 FEDYGLKRELLMGIFEKGFEKPSPIQEESIPIALSGRDILARAKNGTGKTGAYLIPILEKIDPKKDVIQALILVPTRELA 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 106 FQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDhLENTKGFNLRALKYLVMDEADRILNMDFE 185
Cdd:cd17940  81 LQTSQVCKELGKHMGVKVMVTTGGTSLRDDIMRLYQTVHVLVGTPGRILD-LAKKGVADLSHCKTLVLDEADKLLSQDFQ 159

                       170       180       190       200
                ....*....|....*....|....*....|....*....|
gi 41327776 186 TEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVK 225
Cdd:cd17940 160 PIIEKILNFLPKERQILLFSATFPLTVKNFMDRHMHNPYE 199
DEADc_DDX4 cd18052
DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA ...
 25-221 8.53e-50

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: 168.99  E-value: 8.53e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  25 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLET---------PQRLFA 95
Cdd:cd18052  44 TFEEANLCETLLKNIRKAGYEKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPVLTGMMKEgltassfseVQEPQA 123

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  96 LVLTPTRELAFQIseQFEALGSSIG--VQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKgFNLRALKYLVM 173
Cdd:cd18052 124 LIVAPTRELANQI--FLEARKFSYGtcIRPVVVYGGVSVGHQIRQIEKGCHILVATPGRLLDFIGRGK-ISLSKLKYLIL 200

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|..
gi 41327776 174 DEADRILNMDFETEVDKILKV--IPR--DRKTFLFSATMTKKVQKLQRAALK 221
Cdd:cd18052 201 DEADRMLDMGFGPEIRKLVSEpgMPSkeDRQTLMFSATFPEEIQRLAAEFLK 252
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
 25-327 3.92e-48

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 171.12  E-value: 3.92e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   25 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNAL-------LETPQRLFALV 97
Cdd:PLN00206 122 SFSSCGLPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCctirsghPSEQRNPLAMV 201

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   98 LTPTRELAFQISEQFEALGSSIGVQSAVIVGGiDSMSQSLALAKKP-HIIIATPGRLIDHLeNTKGFNLRALKYLVMDEA 176
Cdd:PLN00206 202 LTPTRELCVQVEDQAKVLGKGLPFKTALVVGG-DAMPQQLYRIQQGvELIVGTPGRLIDLL-SKHDIELDNVSVLVLDEV 279

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  177 DRILNMDFETEVDKILKVIPRDrKTFLFSATMTKKVQKLQRAALKNPVKCAVSSKYQTVEKLQQYYIFIPSKFKSKR--- 253
Cdd:PLN00206 280 DCMLERGFRDQVMQIFQALSQP-QVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVETKQKKQKlfd 358

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  254 -LGSLNKFKA-------------------------KARSI-----------------------LLATDVASRGLDIPHVD 284
Cdd:PLN00206 359 iLKSKQHFKPpavvfvssrlgadllanaitvvtglKALSIhgeksmkerrevmksflvgevpvIVATGVLGRGVDLLRVR 438

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|...
gi 41327776  285 VVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQ 327
Cdd:PLN00206 439 QVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFVNEEDRNLFP 481
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
 8-228 1.22e-47

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: 162.90  E-value: 1.22e-47
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   8 DSPTEASQPIVEEEeTKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALL 87
Cdd:cd18051   6 DIPVEATGENCPPH-IETFSDLDLGEIIRNNIELARYTKPTPVQKHAIPIIKSKRDLMACAQTGSGKTAAFLLPILSQIY 84

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  88 ET----------------PQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPG 151
Cdd:cd18051  85 EQgpgeslpsesgyygrrKQYPLALVLAPTRELASQIYDEARKFAYRSRVRPCVVYGGADIGQQMRDLERGCHLLVATPG 164

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 152 RLIDHLENTKgFNLRALKYLVMDEADRILNMDFETEVDKILK--VIPR--DRKTFLFSATMTKKVQKLQRAALKNPVKCA 227
Cdd:cd18051 165 RLVDMLERGK-IGLDYCKYLVLDEADRMLDMGFEPQIRRIVEqdTMPPtgERQTLMFSATFPKEIQMLARDFLDNYIFLA 243


                .
gi 41327776 228 V 228
Cdd:cd18051 244 V 244
DEADc_DDX43_DDX53 cd17958
DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis ...
 37-224 3.89e-47

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: 159.94  E-value: 3.89e-47
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  37 EACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETP----QRL--FALVLTPTRELAFQISE 110
Cdd:cd17958   3 KEIKKQGFEKPSPIQSQAWPIILQGIDLIGVAQTGTGKTLAYLLPGFIHLDLQPipreQRNgpGVLVLTPTRELALQIEA 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 111 QFEALgSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDhLENTKGFNLRALKYLVMDEADRILNMDFETEVDK 190
Cdd:cd17958  83 ECSKY-SYKGLKSVCVYGGGNRNEQIEDLSKGVDIIIATPGRLND-LQMNNVINLKSITYLVLDEADRMLDMGFEPQIRK 160

                       170       180       190
                ....*....|....*....|....*....|....
gi 41327776 191 ILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPV 224
Cdd:cd17958 161 ILLDIRPDRQTIMTSATWPDGVRRLAQSYLKDPM 194
DEADc_DDX51 cd17956
DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by ...
 35-223 5.00e-47

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: 160.88  E-value: 5.00e-47
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  35 LCEACDQLGWTKPTKIQIEAIPLALQG---------RDIIGLAETGSGKTGAFALPILNALLETP-QRLFALVLTPTREL 104
Cdd:cd17956   1 LLKNLQNNGITSAFPVQAAVIPWLLPSskstppyrpGDLCVSAPTGSGKTLAYVLPIVQALSKRVvPRLRALIVVPTKEL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 105 AFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPH--------IIIATPGRLIDHLENTKGFNLRALKYLVMDEA 176
Cdd:cd17956  81 VQQVYKVFESLCKGTGLKVVSLSGQKSFKKEQKLLLVDTSgrylsrvdILVATPGRLVDHLNSTPGFTLKHLRFLVIDEA 160

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 41327776 177 DRILNMDFETEVDKILKVIPRDRKT--------------------FLFSATMTKKVQKLQRAALKNP 223
Cdd:cd17956 161 DRLLNQSFQDWLETVMKALGRPTAPdlgsfgdanllersvrplqkLLFSATLTRDPEKLSSLKLHRP 227
DEADc_DDX1 cd17938
DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ...
 26-224 2.39e-46

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: 157.87  E-value: 2.39e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  26 FKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILnalletpQRLFALVLTPTRELA 105
Cdd:cd17938   1 FEELGVMPELIKAVEELDWLLPTDIQAEAIPLILGGGDVLMAAETGSGKTGAFCLPVL-------QIVVALILEPSRELA 73

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 106 FQISEQFEALGSSI---GVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRILNM 182
Cdd:cd17938  74 EQTYNCIENFKKYLdnpKLRVALLIGGVKAREQLKRLESGVDIVVGTPGRLEDLIKTGK-LDLSSVRFFVLDEADRLLSQ 152

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*....
gi 41327776 183 DFETEVDKILKVIPR-----DR-KTFLFSATM-TKKVQKLQRAALKNPV 224
Cdd:cd17938 153 GNLETINRIYNRIPKitsdgKRlQVIVCSATLhSFEVKKLADKIMHFPT 201
DEADc_EIF4A cd17939
DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation ...
 43-225 4.41e-45

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: 154.40  E-value: 4.41e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  43 GWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQ 122
Cdd:cd17939  16 GFEKPSAIQQRAIVPIIKGRDVIAQAQSGTGKTATFSIGALQRIDTTVRETQALVLAPTRELAQQIQKVVKALGDYMGVK 95

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 123 SAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLeNTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTF 202
Cdd:cd17939  96 VHACIGGTSVREDRRKLQYGPHIVVGTPGRVFDML-QRRSLRTDKIKMFVLDEADEMLSRGFKDQIYDIFQFLPPETQVV 174

                       170       180
                ....*....|....*....|...
gi 41327776 203 LFSATMTKKVQKLQRAALKNPVK 225
Cdd:cd17939 175 LFSATMPHEVLEVTKKFMRDPVR 197
DEADc_DDX59 cd17962
DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer ...
 43-225 9.51e-45

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: 153.47  E-value: 9.51e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  43 GWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSI-GV 121
Cdd:cd17962   9 GYEVPTPIQMQMIPVGLLGRDILASADTGSGKTAAFLLPVIIRCLTEHRNPSALILTPTRELAVQIEDQAKELMKGLpPM 88

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 122 QSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLeNTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKT 201
Cdd:cd17962  89 KTALLVGGLPLPPQLYRLQQGVKVIIATPGRLLDIL-KQSSVELDNIKIVVVDEADTMLKMGFQQQVLDILENISHDHQT 167

                       170       180
                ....*....|....*....|....
gi 41327776 202 FLFSATMTKKVQKLQRAALKNPVK 225
Cdd:cd17962 168 ILVSATIPRGIEQLAGQLLQNPVR 191
DEADc_DDX5 cd18049
DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, ...
 44-230 1.19e-42

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: 149.39  E-value: 1.19e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  44 WTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPIL-----NALLETPQRLFALVLTPTRELAFQISEQFEALGSS 118
Cdd:cd18049  44 FTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIvhinhQPFLERGDGPICLVLAPTRELAQQVQQVAAEYGRA 123

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 119 IGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGfNLRALKYLVMDEADRILNMDFETEVDKILKVIPRD 198
Cdd:cd18049 124 CRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLEAGKT-NLRRCTYLVLDEADRMLDMGFEPQIRKIVDQIRPD 202

                       170       180       190
                ....*....|....*....|....*....|..
gi 41327776 199 RKTFLFSATMTKKVQKLQRAALKNPVKCAVSS 230
Cdd:cd18049 203 RQTLMWSATWPKEVRQLAEDFLKDYIHINIGA 234
DEADc_DDX17 cd18050
DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or ...
 31-228 1.80e-42

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: 150.16  E-value: 1.80e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  31 VTDVLCeacdQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPIL-----NALLETPQRLFALVLTPTRELA 105
Cdd:cd18050  73 VMDVLL----DQNFKEPTPIQCQGFPLALSGRDMVGIAQTGSGKTLAYLLPAIvhinhQPYLERGDGPICLVLAPTRELA 148

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 106 FQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGfNLRALKYLVMDEADRILNMDFE 185
Cdd:cd18050 149 QQVQQVADDYGKSSRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLEAGKT-NLRRCTYLVLDEADRMLDMGFE 227

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 41327776 186 TEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAV 228
Cdd:cd18050 228 PQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLRDYVQINI 270
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
 26-224 2.30e-40

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: 142.48  E-value: 2.30e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  26 FKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELA 105
Cdd:cd17950   4 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLSTLQQLEPVDGQVSVLVICHTRELA 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 106 FQISEQFEALGSSI-GVQSAVIVGGIDSMSQSLALAKK-PHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRIL-NM 182
Cdd:cd17950  84 FQISNEYERFSKYMpNVKTAVFFGGVPIKKDIEVLKNKcPHIVVGTPGRILALVRE-KKLKLSHVKHFVLDECDKMLeQL 162

                       170       180       190       200
                ....*....|....*....|....*....|....*....|..
gi 41327776 183 DFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPV 224
Cdd:cd17950 163 DMRRDVQEIFRATPHDKQVMMFSATLSKEIRPVCKKFMQDPL 204
DEADc_DDX19_DDX25 cd17963
DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called ...
 42-225 1.65e-36

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: 131.93  E-value: 1.65e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  42 LGWTKPTKIQIEAIPLALQG--RDIIGLAETGSGKTGAFALPIL---NALLETPQrlfALVLTPTRELAFQISEQFEALG 116
Cdd:cd17963  12 MGFNKPSKIQETALPLILSDppENLIAQSQSGTGKTAAFVLAMLsrvDPTLKSPQ---ALCLAPTRELARQIGEVVEKMG 88

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 117 SSIGVQSAVIVGGIDSMSQSLALAkkpHIIIATPGRLIDHLEnTKGFNLRALKYLVMDEADRILNMD-FETEVDKILKVI 195
Cdd:cd17963  89 KFTGVKVALAVPGNDVPRGKKITA---QIVIGTPGTVLDWLK-KRQLDLKKIKILVLDEADVMLDTQgHGDQSIRIKRML 164

                       170       180       190
                ....*....|....*....|....*....|
gi 41327776 196 PRDRKTFLFSATMTKKVQKLQRAALKNPVK 225
Cdd:cd17963 165 PRNCQILLFSATFPDSVRKFAEKIAPNANT 194
DEADc_DDX20 cd17943
DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, ...
 43-207 3.04e-36

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: 131.23  E-value: 3.04e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  43 GWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSI-GV 121
Cdd:cd17943   9 GFQRPSPIQLAAIPLGLAGHDLIVQAKSGTGKTLVFVVIALESLDLERRHPQVLILAPTREIAVQIHDVFKKIGKKLeGL 88

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 122 QSAVIVGGIDsMSQSLALAKKPHIIIATPGRlIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKT 201
Cdd:cd17943  89 KCEVFIGGTP-VKEDKKKLKGCHIAVGTPGR-IKQLIELGALNVSHVRLFVLDEADKLMEGSFQKDVNWIFSSLPKNKQV 166


                ....*.
gi 41327776 202 FLFSAT 207
Cdd:cd17943 167 IAFSAT 172
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 251-318 4.21e-36

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: 128.78  E-value: 4.21e-36
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 41327776 251 SKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFV 318
Cdd:cd18787  64 EERERALKKFRSGKVRVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DEADc_EIF4AII_EIF4AI_DDX2 cd18046
DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation ...
 26-225 7.48e-35

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: 127.56  E-value: 7.48e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  26 FKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNAL---LETPQrlfALVLTPTR 102
Cdd:cd18046   1 FDDMNLKESLLRGIYAYGFEKPSAIQQRAIMPCIKGYDVIAQAQSGTGKTATFSISILQQIdtsLKATQ---ALVLAPTR 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 103 ELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLeNTKGFNLRALKYLVMDEADRILNM 182
Cdd:cd18046  78 ELAQQIQKVVMALGDYMGIKCHACIGGTSVRDDAQKLQAGPHIVVGTPGRVFDMI-NRRYLRTDYIKMFVLDEADEMLSR 156

                       170       180       190       200
                ....*....|....*....|....*....|....*....|...
gi 41327776 183 DFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVK 225
Cdd:cd18046 157 GFKDQIYDIFQKLPPDTQVVLLSATMPNDVLEVTTKFMRDPIR 199
DEADc_EIF4AIII_DDX48 cd18045
DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor ...
 26-225 4.53e-31

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: 4.53e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  26 FKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELA 105
Cdd:cd18045   1 FETMGLREDLLRGIYAYGFEKPSAIQQRAIKPIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILSPTRELA 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 106 FQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENtKGFNLRALKYLVMDEADRILNMDFE 185
Cdd:cd18045  81 VQIQKVLLALGDYMNVQCHACIGGTSVGDDIRKLDYGQHIVSGTPGRVFDMIRR-RSLRTRHIKMLVLDEADEMLNKGFK 159

                       170       180       190       200
                ....*....|....*....|....*....|....*....|
gi 41327776 186 TEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVK 225
Cdd:cd18045 160 EQIYDVYRYLPPATQVVLVSATLPQDILEMTNKFMTDPIR 199
DEADc_DDX28 cd17948
DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box ...
 35-215 2.00e-30

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: 116.70  E-value: 2.00e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  35 LCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALL---ETPQRLF----ALVLTPTRELAFQ 107
Cdd:cd17948   1 LVEILQRQGITKPTTVQKQGIPSILRGRNTLCAAETGSGKTLTYLLPIIQRLLrykLLAEGPFnaprGLVITPSRELAEQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 108 ISEQFEALGSSIGVQSAVIVGGidsmsQSLALAKKPH-----IIIATPGrLIDHLENTKGFNLRALKYLVMDEADRILNM 182
Cdd:cd17948  81 IGSVAQSLTEGLGLKVKVITGG-----RTKRQIRNPHfeevdILVATPG-ALSKLLTSRIYSLEQLRHLVLDEADTLLDD 154

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*.
gi 41327776 183 DFETEVDKILK-----------VIPRDRKT--FLFSATMTKKVQKL 215
Cdd:cd17948 155 SFNEKLSHFLRrfplasrrsenTDGLDPGTqlVLVSATMPSGVGEV 200
DEADc_DDX21_DDX50 cd17944
DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and ...
 50-221 2.22e-26

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: 104.93  E-value: 2.22e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  50 IQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLF------ALVLTPTRELAFQISEQFEALGSSIGVqs 123
Cdd:cd17944  16 IQVKTFHPVYSGKDLIAQARTGTGKTFSFAIPLIEKLQEDQQPRKrgrapkVLVLAPTRELANQVTKDFKDITRKLSV-- 93

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 124 AVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKgFNLRALKYLVMDEADRILNMDFETEVDKILKVI----PRDR 199
Cdd:cd17944  94 ACFYGGTPYQQQIFAIRNGIDILVGTPGRIKDHLQNGR-LDLTKLKHVVLDEVDQMLDMGFAEQVEEILSVSykkdSEDN 172

                       170       180
                ....*....|....*....|...
gi 41327776 200 -KTFLFSATMTKKVQKLQRAALK 221
Cdd:cd17944 173 pQTLLFSATCPDWVYNVAKKYMK 195
DEADc_DDX25 cd18048
DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated ...
 24-223 3.11e-21

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: 91.62  E-value: 3.11e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  24 KTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQG--RDIIGLAETGSGKTGAFALPIL---NALLETPQrlfALVL 98
Cdd:cd18048  18 KSFEELHLKEELLRGIYAMGFNRPSKIQENALPMMLADppQNLIAQSQSGTGKTAAFVLAMLsrvDALKLYPQ---CLCL 94

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  99 TPTRELAFQISEQFEALGS-SIGVQSAVIVGGiDSMSQSLALAKKphIIIATPGRLIDHLENTKGFNLRALKYLVMDEAD 177
Cdd:cd18048  95 SPTFELALQTGKVVEEMGKfCVGIQVIYAIRG-NRPGKGTDIEAQ--IVIGTPGTVLDWCFKLRLIDVTNISVFVLDEAD 171

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*..
gi 41327776 178 RILNMD-FETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNP 223
Cdd:cd18048 172 VMINVQgHSDHSVRVKRSMPKECQMLLFSATFEDSVWAFAERIVPDP 218
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 250-309 3.05e-20

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: 85.34  E-value: 3.05e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   250 KSKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAG 309
Cdd:pfam00271  50 QEEREEILEDFRKGKIDVLVATDVAERGLDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
DEADc_DDX19 cd18047
DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both ...
 24-223 3.80e-19

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: 85.16  E-value: 3.80e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  24 KTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQ--GRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPT 101
Cdd:cd18047   1 KSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAepPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPT 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 102 RELAFQISEQFEALGSSI-GVQSAVIVGGiDSMSQSLALakKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEAD-RI 179
Cdd:cd18047  81 YELALQTGKVIEQMGKFYpELKLAYAVRG-NKLERGQKI--SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADvMI 157

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....
gi 41327776 180 LNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNP 223
Cdd:cd18047 158 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDP 201
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 67-207 1.17e-18

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: 82.07  E-value: 1.17e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  67 LAETGSGKTGAFALPILNALLEtpQRLFALVLTPTRELAFQISEQFEALgSSIGVQSAVIVGGIDSMSQSLALAKKPHII 146
Cdd:cd00046   7 TAPTGSGKTLAALLAALLLLLK--KGKKVLVLVPTKALALQTAERLREL-FGPGIRVAVLVGGSSAEEREKNKLGDADII 83

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 41327776 147 IATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDK--ILKVIPRDRKTFLFSAT 207
Cdd:cd00046  84 IATPDMLLNLLLREDRLFLKDLKLIIVDEAHALLIDSRGALILDlaVRKAGLKNAQVILLSAT 146
HELICc smart00490
helicase superfamily c-terminal domain;
250-309 5.96e-18

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 78.02  E-value: 5.96e-18
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776    250 KSKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAG 309
Cdd:smart00490  23 QEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
DEADc_MRH4 cd17965
DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 ...
 41-217 3.33e-16

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: 77.80  E-value: 3.33e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  41 QLGWTKPTKIQIEAIPLALQ---------------GRDIIGLA-ETGSGKTGAFALPILNALLETPQRLF---------- 94
Cdd:cd17965  25 TDEEIKPSPIQTLAIKKLLKtlmrkvtkqtsneepKLEVFLLAaETGSGKTLAYLAPLLDYLKRQEQEPFeeaeeeyesa 104

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  95 -------ALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALA--KKPHIIIATPGrLIDHLENTKGFNL 165
Cdd:cd17965 105 kdtgrprSVILVPTHELVEQVYSVLKKLSHTVKLGIKTFSSGFGPSYQRLQLAfkGRIDILVTTPG-KLASLAKSRPKIL 183

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|..
gi 41327776 166 RALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQR 217
Cdd:cd17965 184 SRVTHLVVDEADTLFDRSFLQDTTSIIKRAPKLKHLILCSATIPKEFDKTLR 235
YprA COG1205
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, ...
 35-176 1.00e-15

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: 79.11  E-value: 1.00e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  35 LCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPqRLFALVLTPTRELAF-Q---ISE 110
Cdd:COG1205  45 LRAALKKRGIERLYSHQAEAIEAARAGKNVVIATPTASGKSLAYLLPVLEALLEDP-GATALYLYPTKALARdQlrrLRE 123

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 41327776 111 QFEALGSSIGVqsAVIVGGIdSMSQSLALAKKPHIIIATP-----GrLIDHLENTKGFnLRALKYLVMDEA 176
Cdd:COG1205 124 LAEALGLGVRV--ATYDGDT-PPEERRWIREHPDIVLTNPdmlhyG-LLPHHTRWARF-FRNLRYVVIDEA 189
DEXHc_Hrq1-like cd17923
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ...
 51-176 3.02e-13

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: 67.61  E-value: 3.02e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  51 QIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLfALVLTPTRELAFQISEQFEALGSSIGvqSAVIVGGI 130
Cdd:cd17923   5 QAEAIEAARAGRSVVVTTGTASGKSLCYQLPILEALLRDPGSR-ALYLYPTKALAQDQLRSLRELLEQLG--LGIRVATY 81

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|...
gi 41327776 131 D---SMSQSLALAKK-PHIIIATPGRL---IDHLENTKGFNLRALKYLVMDEA 176
Cdd:cd17923  82 DgdtPREERRAIIRNpPRILLTNPDMLhyaLLPHHDRWARFLRNLRYVVLDEA 134
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 48-176 5.64e-11

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: 61.12  E-value: 5.64e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  48 TKIQIEAIPLALQGRDIIGL-AETGSGKTGAFALPILNALLETPQRlfALVLTPTRELAFQISEQFEALGSSIGVQSAVI 126
Cdd:cd17921   3 NPIQREALRALYLSGDSVLVsAPTSSGKTLIAELAILRALATSGGK--AVYIAPTRALVNQKEADLRERFGPLGKNVGLL 80

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|
gi 41327776 127 VGGIDSMSQSLAlakKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEA 176
Cdd:cd17921  81 TGDPSVNKLLLA---EADILVATPEKLDLLLRNGGERLIQDVRLVVVDEA 127
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 243-318 5.13e-10

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: 55.40  E-value: 5.13e-10
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 41327776 243 IFIPSKFKSKRLgslnkfkAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAG-RSGKAITFV 318
Cdd:cd18785   8 VFTNSIEHAEEI-------ASSLEILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGRGGkDEGEVILFV 77
DEXHc_LHR-like cd17922
DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA ...
 61-175 1.81e-09

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: 56.44  E-value: 1.81e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  61 GRDIIGLAETGSGKTGAFALPILNALL-ETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIV--GGIDSMSQSL 137
Cdd:cd17922   1 GRNVLIAAPTGSGKTEAAFLPALSSLAdEPEKGVQVLYISPLKALINDQERRLEEPLDEIDLEIPVAVrhGDTSQSEKAK 80

                        90       100       110
                ....*....|....*....|....*....|....*....
gi 41327776 138 ALAKKPHIIIATPGRLIDHLENTKGFN-LRALKYLVMDE 175
Cdd:cd17922  81 QLKNPPGILITTPESLELLLVNKKLRElFAGLRYVVVDE 119
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
70-388 6.15e-09

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 57.73  E-value: 6.15e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  70 TGSGKTGAFALpilnALLETPQRLFALVLTPTRELAFQISEQFEAL-------GSSIGVQSAVIVGGIDSMSQSLALAK- 141
Cdd:COG1061 109 TGTGKTVLALA----LAAELLRGKRVLVLVPRRELLEQWAEELRRFlgdplagGGKKDSDAPITVATYQSLARRAHLDEl 184

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 142 ---KPHIII---------------------------ATPGR------LIDHLENTK-GFNLRAL---------------- 168
Cdd:COG1061 185 gdrFGLVIIdeahhagapsyrrileafpaayrlgltATPFRsdgreiLLFLFDGIVyEYSLKEAiedgylappeyygirv 264

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 169 -------KYLVMDEADRILNMDFETEVDKILKVI----PRDRKTFLFSATmTKKVQKLQRAALKNPVKC-AVSSKyqtve 236
Cdd:COG1061 265 dltderaEYDALSERLREALAADAERKDKILRELlrehPDDRKTLVFCSS-VDHAEALAELLNEAGIRAaVVTGD----- 338

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 237 klqqyyifipsKFKSKRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFDiPTHSK-DYIHRVGRTARAGRSGKA- 314
Cdd:COG1061 339 -----------TPKKEREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAILLR-PTGSPrEFIQRLGRGLRPAPGKEDa 406

                       330       340       350       360       370       380       390
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 41327776 315 --ITFVTQyDVELFQRIEHLIGKKLPGFPTQDDEVMMLTERVAEAQRFARMELREHGEKKKRSREDAGDNDDTEGA 388
Cdd:COG1061 407 lvYDFVGN-DVPVLEELAKDLRDLAGYRVEFLDEEESEELALLIAVKPALEVKGELEEELLEELELLEDALLLVLA 481
DEXHc_dicer cd18034
DEXH-box helicase domain of endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded ...
 45-176 1.38e-08

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


Pssm-ID: 350792 [Multi-domain]  Cd Length: 200  Bit Score: 54.58  E-value: 1.38e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  45 TKPTKIQIEAIPLALQgRDIIGLAETGSGKTGAFALPI-----LNALLETPQRlFALVLTPTRELAFQiseQFEALGSSI 119
Cdd:cd18034   1 FTPRSYQLELFEAALK-RNTIVVLPTGSGKTLIAVMLIkemgeLNRKEKNPKK-RAVFLVPTVPLVAQ---QAEAIRSHT 75

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 41327776 120 GVQSAVIVGGIDSMSQS----LALAKKPHIIIATPGRLIDHLENTKgFNLRALKYLVMDEA 176
Cdd:cd18034  76 DLKVGEYSGEMGVDKWTkerwKEELEKYDVLVMTAQILLDALRHGF-LSLSDINLLIFDEC 135
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
252-319 1.90e-08

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


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 56.28  E-value: 1.90e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 41327776 252 KRLGSLNKFKAKARSILLATDVASRGLDIPHVDVVVNFD-IPTHSKdYIHRVGRTARaGRSGKAITFVT 319
Cdd:COG1111 399 EQIEILERFRAGEFNVLVATSVAEEGLDIPEVDLVIFYEpVPSEIR-SIQRKGRTGR-KREGRVVVLIA 465
SF2_C_dicer cd18802
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave ...
 257-308 1.96e-08

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: 52.59  E-value: 1.96e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 41327776 257 LNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRtARA 308
Cdd:cd18802  83 LDKFRDGELNLLIATSVLEEGIDVPACNLVIRFDLPKTLRSYIQSRGR-ARA 133
DEXHc_RecQ cd17920
DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box ...
 43-224 2.39e-08

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


Pssm-ID: 350678 [Multi-domain]  Cd Length: 200  Bit Score: 53.69  E-value: 2.39e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  43 GWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPilnALLETPqrlFALVLTPTRELafqISEQFEALgSSIGVQ 122
Cdd:cd17920   9 GYDEFRPGQLEAINAVLAGRDVLVVMPTGGGKSLCYQLP---ALLLDG---VTLVVSPLISL---MQDQVDRL-QQLGIR 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 123 SAVIVGGIDSMSQSLALAK----KPHIIIATPGRL--------IDHLENTKGFNLralkyLVMDEADRILN--MDFETEV 188
Cdd:cd17920  79 AAALNSTLSPEEKREVLLRikngQYKLLYVTPERLlspdflelLQRLPERKRLAL-----IVVDEAHCVSQwgHDFRPDY 153

                       170       180       190       200
                ....*....|....*....|....*....|....*....|
gi 41327776 189 DKILKVIPRDRKT--FLFSATMTKKVQK--LQRAALKNPV 224
Cdd:cd17920 154 LRLGRLRRALPGVpiLALTATATPEVREdiLKRLGLRNPV 193
Lhr COG1201
Lhr-like helicase [Replication, recombination and repair];
44-175 4.11e-08

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


Pssm-ID: 440814 [Multi-domain]  Cd Length: 850  Bit Score: 55.49  E-value: 4.11e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  44 WTKPTKIQIEAIPLALQGRDIIGLAETGSGKT-GAFaLPILNALLETP------QRLFALVLTPTRELAFQISEQFEALG 116
Cdd:COG1201  22 FGAPTPPQREAWPAIAAGESTLLIAPTGSGKTlAAF-LPALDELARRPrpgelpDGLRVLYISPLKALANDIERNLRAPL 100

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 41327776 117 SSIGVQSAVIVGGI-------D-SMSQSLALAKK-PHIIIATPgrlidhlE------NTKGF--NLRALKYLVMDE 175
Cdd:COG1201 101 EEIGEAAGLPLPEIrvgvrtgDtPASERQRQRRRpPHILITTP-------EslalllTSPDAreLLRGVRTVIVDE 169
DEXHc_RE cd17926
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ...
 51-207 1.37e-07

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: 50.38  E-value: 1.37e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  51 QIEAIPLALQ----GRDIIGLAeTGSGKTgAFALPILNALLETPqrlfALVLTPTRELAFQISEQFEALG--SSIGVQSA 124
Cdd:cd17926   5 QEEALEAWLAhknnRRGILVLP-TGSGKT-LTALALIAYLKELR----TLIVVPTDALLDQWKERFEDFLgdSSIGLIGG 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 125 VIVGGIDSMSqslalakkphIIIATPGRLIDHLENTKGFNLRALkYLVMDEADRILNMDFEtevdKILKvIPRDRKTFLF 204
Cdd:cd17926  79 GKKKDFDDAN----------VVVATYQSLSNLAEEEKDLFDQFG-LLIVDEAHHLPAKTFS----EILK-ELNAKYRLGL 142


                ...
gi 41327776 205 SAT 207
Cdd:cd17926 143 TAT 145
DEXHc_HFM1 cd18023
DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box ...
 48-150 4.27e-07

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: 50.05  E-value: 4.27e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  48 TKIQIEAIPLALQG-RDIIGLAETGSGKTGAFALPILNALLETPQ----RLFALVLTPTRELAFQISEQFEALGSSIGVQ 122
Cdd:cd18023   3 NRIQSEVFPDLLYSdKNFVVSAPTGSGKTVLFELAILRLLKERNPlpwgNRKVVYIAPIKALCSEKYDDWKEKFGPLGLS 82

                        90       100
                ....*....|....*....|....*...
gi 41327776 123 SAVIVGgiDSMSQSLALAKKPHIIIATP 150
Cdd:cd18023  83 CAELTG--DTEMDDTFEIQDADIILTTP 108
DEXHc_archSki2 cd18028
DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play ...
 51-175 7.51e-07

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: 48.87  E-value: 7.51e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  51 QIEAI-PLALQGRDIIGLAETGSGKTGAFALPILNALLETPQrlfALVLTPTRELAFQISEQFEALgSSIGVQSAVIVGG 129
Cdd:cd18028   6 QAEAVrAGLLKGENLLISIPTASGKTLIAEMAMVNTLLEGGK---ALYLVPLRALASEKYEEFKKL-EEIGLKVGISTGD 81

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*.
gi 41327776 130 IDSMSQSLAlakKPHIIIATPGRLiDHLENTKGFNLRALKYLVMDE 175
Cdd:cd18028  82 YDEDDEWLG---DYDIIVATYEKF-DSLLRHSPSWLRDVGVVVVDE 123
PRK13766 PRK13766
Hef nuclease; Provisional
 257-320 1.76e-06

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 50.26  E-value: 1.76e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 41327776  257 LNKFKAKARSILLATDVASRGLDIPHVDVVVNFD-IPTHSKdYIHRVGRTARaGRSGKAITFVTQ 320
Cdd:PRK13766 416 LDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEpVPSEIR-SIQRKGRTGR-QEEGRVVVLIAK 478
SF2_C_FANCM_Hef cd18801
C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M ...
 257-315 2.09e-06

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: 46.97  E-value: 2.09e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 41327776 257 LNKFKAKARSILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARaGRSGKAI 315
Cdd:cd18801  83 IEQFRKGGYNVLVATSIGEEGLDIGEVDLIICYDASPSPIRMIQRMGRTGR-KRQGRVV 140
PRK13767 PRK13767
ATP-dependent helicase; Provisional
 48-175 7.01e-06

ATP-dependent helicase; Provisional


Pssm-ID: 237497 [Multi-domain]  Cd Length: 876  Bit Score: 48.34  E-value: 7.01e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776   48 TKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALL------ETPQRLFALVLTPTRELA-----------FQISE 110
Cdd:PRK13767  34 TPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFrlgregELEDKVYCLYVSPLRALNndihrnleeplTEIRE 113

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 41327776  111 QFEALGSSI-GVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKgFN--LRALKYLVMDE 175
Cdd:PRK13767 114 IAKERGEELpEIRVAIRTGDTSSYEKQKMLKKPPHILITTPESLAILLNSPK-FRekLRTVKWVIVDE 180
DEXHc_RecQ2_BLM cd18016
DEAH-box helicase domain of RecQ2; ATP-dependent DNA helicase Q2 (RecQ2, also called Bloom ...
 51-221 5.08e-05

DEAH-box helicase domain of RecQ2; ATP-dependent DNA helicase Q2 (RecQ2, also called Bloom syndrome protein homolog or BLM) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Mutations in RecQ2 cause Bloom syndrome.


Pssm-ID: 350774 [Multi-domain]  Cd Length: 208  Bit Score: 44.05  E-value: 5.08e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  51 QIEAIPLALQGRDIIGLAETGSGKTGAFALPilnALLeTPQrlFALVLTPTRELafqISEQFEALgSSIGVQSAVIVGGI 130
Cdd:cd18016  22 QLEAINAALLGEDCFVLMPTGGGKSLCYQLP---ACV-SPG--VTVVISPLRSL---IVDQVQKL-TSLDIPATYLTGDK 91

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 131 ---DSMSQSLALAKKPHII---------IATPGRLIDHLENTKGFNLraLKYLVMDEADRI--LNMDFETEVDKiLKVIp 196
Cdd:cd18016  92 tdaEATKIYLQLSKKDPIIkllyvtpekISASNRLISTLENLYERKL--LARFVIDEAHCVsqWGHDFRPDYKR-LNML- 167

                       170       180       190
                ....*....|....*....|....*....|.
gi 41327776 197 rdRKTF------LFSATMTKKVQKLQRAALK 221
Cdd:cd18016 168 --RQKFpsvpmmALTATATPRVQKDILNQLK 196
SF2_C_priA cd18804
C-terminal helicase domain of ATP-dependent helicase PriA; PriA, also known as replication ...
 247-331 1.19e-04

C-terminal helicase domain of ATP-dependent helicase PriA; PriA, also known as replication factor Y or primosomal protein N', is a 3'-->5' DNA helicase that acts to remodel stalled replication forks and as a specificity factor for origin-independent assembly of a new replisome at the stalled fork. PriA 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: 350191 [Multi-domain]  Cd Length: 238  Bit Score: 43.39  E-value: 1.19e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 247 SKFKSKRLGSLNKFKAKARSILLATDVASRGLDIPHVD--VVVNFDIPTHSKDY---------IHRV-GRTARAGRSGKA 314
Cdd:cd18804 127 TRKKGALEKLLDQFERGEIDILIGTQMIAKGLDFPNVTlvGILNADSGLNSPDFraserafqlLTQVsGRAGRGDKPGKV 206

                        90
                ....*....|....*....
gi 41327776 315 I--TFVTQYDveLFQRIEH 331
Cdd:cd18804 207 IiqTYNPEHP--LIQAAKE 223
DEXHc_RecQ1 cd18015
DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ ...
 31-214 1.42e-04

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


Pssm-ID: 350773 [Multi-domain]  Cd Length: 209  Bit Score: 42.74  E-value: 1.42e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  31 VTDVLCEaCDQLGWTKPtkIQIEAIPLALQGRDIIGLAETGSGKTGAFALPilnALLEtpqRLFALVLTPTRELafqISE 110
Cdd:cd18015   6 VKDTLKN-VFKLEKFRP--LQLETINATMAGRDVFLVMPTGGGKSLCYQLP---ALCS---DGFTLVVSPLISL---MED 73

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776 111 QFEALGsSIGVQSAVIVGGIDSMSQSLALA---KKP---HIIIATP------GRLIDHLEntKGFNLRALKYLVMDEAD- 177
Cdd:cd18015  74 QLMALK-KLGISATMLNASSSKEHVKWVHAaltDKNselKLLYVTPekiaksKRFMSKLE--KAYNAGRLARIAIDEVHc 150

                       170       180       190       200
                ....*....|....*....|....*....|....*....|
gi 41327776 178 -RILNMDFETEVDK--ILKVIPRDRKTFLFSATMTKKVQK 214
Cdd:cd18015 151 cSQWGHDFRPDYKKlgILKRQFPNVPILGLTATATSKVLK 190
DEXHc_RIG-I cd17927
DEXH-box helicase domain of DEAD-like helicase RIG-I family proteins; Members of the RIG-I ...
 46-178 1.31e-03

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


Pssm-ID: 350685 [Multi-domain]  Cd Length: 201  Bit Score: 39.72  E-value: 1.31e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  46 KPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFA--LVLTPTRELAFQISEQFEALGSSIGVQS 123
Cdd:cd17927   2 KPRNYQLELAQPALKGKNTIICLPTGSGKTFVAVLICEHHLKKFPAGRKGkvVFLANKVPLVEQQKEVFRKHFERPGYKV 81

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*
gi 41327776 124 AVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADR 178
Cdd:cd17927  82 TGLSGDTSENVSVEQIVESSDVIIVTPQILVNDLKSGTIVSLSDFSLLVFDECHN 136
PRK11057 PRK11057
ATP-dependent DNA helicase RecQ; Provisional
 267-384 1.55e-03

ATP-dependent DNA helicase RecQ; Provisional


Pssm-ID: 182933 [Multi-domain]  Cd Length: 607  Bit Score: 40.85  E-value: 1.55e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  267 ILLATDVASRGLDIPHVDVVVNFDIPTHSKDYIHRVGRTARAGRSGKAITFVTQYDVELFQRiehLIGKKLPGfPTQDDE 346
Cdd:PRK11057 289 IVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLRR---CLEEKPAG-QQQDIE 364

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 41327776  347 VMMLTER--VAEAQRFARMELREH-GEkkkrSREDAGDNDD 384
Cdd:PRK11057 365 RHKLNAMgaFAEAQTCRRLVLLNYfGE----GRQEPCGNCD 401
DEXHc_RIG-I_DDX58 cd18073
DEXH-box helicase domain of RIG-I; RIG-I (Retinoic acid-inducible gene I protein), also called ...
 46-175 5.71e-03

DEXH-box helicase domain of RIG-I; RIG-I (Retinoic acid-inducible gene I protein), also called DEAD box protein 58 (DDX58), is a pathogen-recognition receptor that recognizes viral 5'-triphosphates carrying double-stranded RNA. Upon binding to these microbe-associated molecular patterns (MAMPs), RIG-I forms oligomers and promotes downstream processes that result in type I interferon production and induction of an antiviral state. The optimal ligand for RIG-I has been found to be base-paired or double-stranded RNA (dsRNA) molecules containing a 5' triphosphate (5'-ppp-dsRNA). RIG-I contains two N-terminal caspase activation and recruitment domains (CARDs), which are required for interaction with IPS-1, a superfamily 2 helicase/translocase/ATPase (SF2) domain and a C-terminal regulatory/repressor domain (RD). RIG-I is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350831 [Multi-domain]  Cd Length: 202  Bit Score: 37.88  E-value: 5.71e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  46 KPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVL-----TPTRELAFQI-SEQFEALGSSI 119
Cdd:cd18073   2 KPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVffatkVPVYEQQKSVfSKYFERHGYRV 81

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 41327776 120 gvqsAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDE 175
Cdd:cd18073  82 ----TGISGATAENVPVEQIIENNDIIILTPQILVNNLKKGTIPSLSIFTLMIFDE 133
ResIII pfam04851
Type III restriction enzyme, res subunit;
51-179 7.33e-03

Type III restriction enzyme, res subunit;


Pssm-ID: 398492 [Multi-domain]  Cd Length: 162  Bit Score: 36.88  E-value: 7.33e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776    51 QIEAI------PLALQGRDIIGLAeTGSGKTGAFALPILNALLETPQRLFaLVLTPTRELAFQISEQFEALGSSIGVQSA 124
Cdd:pfam04851   8 QIEAIenllesIKNGQKRGLIVMA-TGSGKTLTAAKLIARLFKKGPIKKV-LFLVPRKDLLEQALEEFKKFLPNYVEIGE 85

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 41327776   125 VIVGgiDSMSQSLALAKkphIIIATPGRLIDHLENTKGFNLR-ALKYLVMDEADRI 179
Cdd:pfam04851  86 IISG--DKKDESVDDNK---IVVTTIQSLYKALELASLELLPdFFDVIIIDEAHRS 136
DEXHc_RLR cd18036
DEXH-box helicase domain of RIG-I-like receptors; RIG-I-like receptors (RLRs) sense ...
 46-159 8.65e-03

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


Pssm-ID: 350794 [Multi-domain]  Cd Length: 204  Bit Score: 37.46  E-value: 8.65e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41327776  46 KPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETP---QRLFALVLTPTRELAFQISEQFeaLGSSIGVQ 122
Cdd:cd18036   2 ELRNYQLELVLPALRGKNTIICAPTGSGKTRVAVYICRHHLEKRRsagEKGRVVVLVNKVPLVEQQLEKF--FKYFRKGY 79

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 41327776 123 SAVIVGGIDSMSQSLA-LAKKPHIIIATPGRLIDHLEN 159
Cdd:cd18036  80 KVTGLSGDSSHKVSFGqIVKASDVIICTPQILINNLLS 117
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH