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Conserved domains on  [gi|334187649|ref|NP_196805|]
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RNA helicase family protein [Arabidopsis thaliana]

Protein Classification

DEAD/DEAH box helicase( domain architecture ID 1000776)

DEAD/DEAH box containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA; similar to ATP-dependent RNA helicase that is involved in translation initiation

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
HrpA super family cl34328
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
558-1177 3.36e-170

HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];


The actual alignment was detected with superfamily member COG1643:

Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 526.19  E-value: 3.36e-170
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTINGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIGY 637
Cdd:COG1643    10 LPVSAVLPELLAALRAHQVVVLAAPPGAGKTTQLPLALLELGWGAGGRIGMLEPRRLAARAAAERMAEELGEPVGETVGY 89
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  638 AIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRR-DFKLIVTSATLNAQ 716
Cdd:COG1643    90 RVRFEDKVSAATRIEVVTEGILLRELQRDPELEGVDTVIFDEFHERSLNADLLLALLLDLQPALRpDLKLLVMSATLDAE 169
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  717 KFSNFFGSVPIFNIPGRTFPVNILY--SKTPCEDYVEA---AVKQAMTIHitspPGDILIFMTGQDEIEAAcfslkerME 791
Cdd:COG1643   170 RFARLLGDAPVIESSGRTYPVEVRYrpLPADERDLEDAvadAVREALAEE----PGDILVFLPGEREIRRT-------AE 238
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  792 QLvssSSREITNLLILPIYSQLPADLQAKIFQKPEDGARKCIVATNIAETSLTVDGIYYVIDTGYGKMKVFNPRMGMDAL 871
Cdd:COG1643   239 AL---RGRLPPDTEILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRYVIDSGLARIPRYDPRSGVTRL 315
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  872 QVFPISRAASDQRAGRAGRTGPGTCYRLYTESAYLNeMLPSPVPEIQRTNLGNVVLLLKSLKIDNLLDFDFMDPPPQENI 951
Cdd:COG1643   316 PTERISQASANQRAGRAGRLAPGICYRLWSEEDFAR-RPAFTDPEILRADLASLILELAAWGLGDPEDLPFLDPPPARAI 394
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  952 lNSMYQLWV-LGALNNVGGLTDLGWKMVEFPLDPPLAKMLLMGERLDCIDEVLTIVSMLSVPsvffrpkeraeesDAARE 1030
Cdd:COG1643   395 -ADARALLQeLGALDADGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILAALLSER-------------DPRRG 460
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649 1031 KffvPESDHLTLLNVYQQWKEHDyrgdwcnDHYLQVKGLRKAREVRSQLldiLKQLKIELRSCGPDWDIVRKAICSAYFH 1110
Cdd:COG1643   461 A---AGSDLLARLNLWRRLREQQ-------REFLSYLRLREWRDLARQL---RRLLGEGANEEPADYEAIGLLLALAYPD 527
                         570       580       590       600       610       620
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334187649 1111 NSARLKG-VGEYVnCRTGMPCHLHPSSALYGlgytPDYVVYHELILTTKEY-MQCATSVEPHWLAELGP 1177
Cdd:COG1643   528 RIARRRGeGGRYL-LARGRGAALFPGSPLAK----KEWLVAAELVGGAAEArIRLAAPIDPEWLEELAA 591
U2AF_lg super family cl36941
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
155-226 8.78e-04

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


The actual alignment was detected with superfamily member TIGR01642:

Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 43.34  E-value: 8.78e-04
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 334187649   155 ETPRSRQRNTYDEMDHYRRRESYRQSDRDYHGEKRRRYNSD-----WRTPGRSDWDDGQDEWERSPHGDRGSSYSRR 226
Cdd:TIGR01642   10 EKSRGRDRDRSSERPRRRSRDRSRFRDRHRRSRERSYREDSrprdrRRYDSRSPRSLRYSSVRRSRDRPRRRSRSVR 86
 
Name Accession Description Interval E-value
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
558-1177 3.36e-170

HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 526.19  E-value: 3.36e-170
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTINGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIGY 637
Cdd:COG1643    10 LPVSAVLPELLAALRAHQVVVLAAPPGAGKTTQLPLALLELGWGAGGRIGMLEPRRLAARAAAERMAEELGEPVGETVGY 89
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  638 AIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRR-DFKLIVTSATLNAQ 716
Cdd:COG1643    90 RVRFEDKVSAATRIEVVTEGILLRELQRDPELEGVDTVIFDEFHERSLNADLLLALLLDLQPALRpDLKLLVMSATLDAE 169
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  717 KFSNFFGSVPIFNIPGRTFPVNILY--SKTPCEDYVEA---AVKQAMTIHitspPGDILIFMTGQDEIEAAcfslkerME 791
Cdd:COG1643   170 RFARLLGDAPVIESSGRTYPVEVRYrpLPADERDLEDAvadAVREALAEE----PGDILVFLPGEREIRRT-------AE 238
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  792 QLvssSSREITNLLILPIYSQLPADLQAKIFQKPEDGARKCIVATNIAETSLTVDGIYYVIDTGYGKMKVFNPRMGMDAL 871
Cdd:COG1643   239 AL---RGRLPPDTEILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRYVIDSGLARIPRYDPRSGVTRL 315
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  872 QVFPISRAASDQRAGRAGRTGPGTCYRLYTESAYLNeMLPSPVPEIQRTNLGNVVLLLKSLKIDNLLDFDFMDPPPQENI 951
Cdd:COG1643   316 PTERISQASANQRAGRAGRLAPGICYRLWSEEDFAR-RPAFTDPEILRADLASLILELAAWGLGDPEDLPFLDPPPARAI 394
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  952 lNSMYQLWV-LGALNNVGGLTDLGWKMVEFPLDPPLAKMLLMGERLDCIDEVLTIVSMLSVPsvffrpkeraeesDAARE 1030
Cdd:COG1643   395 -ADARALLQeLGALDADGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILAALLSER-------------DPRRG 460
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649 1031 KffvPESDHLTLLNVYQQWKEHDyrgdwcnDHYLQVKGLRKAREVRSQLldiLKQLKIELRSCGPDWDIVRKAICSAYFH 1110
Cdd:COG1643   461 A---AGSDLLARLNLWRRLREQQ-------REFLSYLRLREWRDLARQL---RRLLGEGANEEPADYEAIGLLLALAYPD 527
                         570       580       590       600       610       620
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334187649 1111 NSARLKG-VGEYVnCRTGMPCHLHPSSALYGlgytPDYVVYHELILTTKEY-MQCATSVEPHWLAELGP 1177
Cdd:COG1643   528 RIARRRGeGGRYL-LARGRGAALFPGSPLAK----KEWLVAAELVGGAAEArIRLAAPIDPEWLEELAA 591
DEAH_box_HrpA TIGR01967
RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ...
556-1177 3.06e-154

RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing. The HrpA/B homolog from Borrelia is 500 amino acids shorter but appears to be derived from HrpA rather than HrpB. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 273900 [Multi-domain]  Cd Length: 1283  Bit Score: 496.98  E-value: 3.06e-154
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   556 QYLPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTINGIVGCTQPRRVAAMSVAKRVSEEMETELGDKI 635
Cdd:TIGR01967   64 DNLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGTPLGEKV 143
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   636 GYAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSATLNA 715
Cdd:TIGR01967  144 GYKVRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDLKIIITSATIDP 223
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   716 QKFSNFFGSVPIFNIPGRTFPVNILYS-----KTPCEDYVEAAVKQAMTIHITSPPGDILIFMTGQDEIeaacfslKERM 790
Cdd:TIGR01967  224 ERFSRHFNNAPIIEVSGRTYPVEVRYRplveeQEDDDLDQLEAILDAVDELFAEGPGDILIFLPGEREI-------RDAA 296
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   791 EQLvssSSREITNLLILPIYSQLPADLQAKIFQkPEDGaRKCIVATNIAETSLTVDGIYYVIDTGYGKMKVFNPRMGMDA 870
Cdd:TIGR01967  297 EIL---RKRNLRHTEILPLYARLSNKEQQRVFQ-PHSG-RRIVLATNVAETSLTVPGIHYVIDTGTARISRYSYRTKVQR 371
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   871 LQVFPISRAASDQRAGRAGRTGPGTCYRLYTESAYLNEMLPSPvPEIQRTNLGNVVLLLKSLKIDNLLDFDFMDPPPQEN 950
Cdd:TIGR01967  372 LPIEPISQASANQRKGRCGRVAPGICIRLYSEEDFNSRPEFTD-PEILRTNLASVILQMLALRLGDIAAFPFIEAPDPRA 450
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   951 ILNSMYQLWVLGALN-NVGG--LTDLGWKMVEFPLDPPLAKMLLMGERLDCIDEVLTIVSMLSVPSVFFRPKERAEESDA 1027
Cdd:TIGR01967  451 IRDGFRLLEELGALDdDEAEpqLTPIGRQLAQLPVDPRLARMLLEAHRLGCLQEVLIIASALSIQDPRERPMEKQQAADQ 530
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  1028 AREKFFVPESDHLTLLNVYQQWKEHD-------YRgDWCNDHYLQVKGLRKAREVRSQLLDILKQLKIELRSCGPDWDIV 1100
Cdd:TIGR01967  531 AHARFKDPRSDFLSRVNLWRHIEEQRqalsanqFR-NACRKQYLNYLRVREWQDIYRQLTQVVKELGLKLNEEPADYDAI 609
                          570       580       590       600       610       620       630
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 334187649  1101 RKAICSAYFHNSARLKGVGEYVNCRtGMPCHLHPSSALYGLGytPDYVVYHELILTTKEYMQCATSVEPHWLAELGP 1177
Cdd:TIGR01967  610 HKALLSGLLSQIGMKDEKHEYDGAR-GRKFHIFPGSPLFKKP--PKWVMAAELVETSKLYARLVAKIEPEWVEPVAG 683
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
533-1175 5.89e-135

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 444.89  E-value: 5.89e-135
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  533 AQHMKKGEAVSEFAMSKTMAEQRQY----------LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTI 602
Cdd:PRK11131   38 AQQAIFQEIAKEIAQAAQRVLLREAarpeitypenLPVSQKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGRGV 117
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  603 NGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIGYAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHE 682
Cdd:PRK11131  118 KGLIGHTQPRRLAARTVANRIAEELETELGGCVGYKVRFNDQVSDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHE 197
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  683 RSLNTDVLFGILKKVVARRRDFKLIVTSATLNAQKFSNFFGSVPIFNIPGRTFPVNILY------SKTPCEDYVEA---A 753
Cdd:PRK11131  198 RSLNIDFILGYLKELLPRRPDLKVIITSATIDPERFSRHFNNAPIIEVSGRTYPVEVRYrpiveeADDTERDQLQAifdA 277
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  754 VKQAMtihiTSPPGDILIFMTGQDEIEAACFSLkermeqlvssSSREITNLLILPIYSQLPADLQAKIFQkPEDGaRKCI 833
Cdd:PRK11131  278 VDELG----REGPGDILIFMSGEREIRDTADAL----------NKLNLRHTEILPLYARLSNSEQNRVFQ-SHSG-RRIV 341
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  834 VATNIAETSLTVDGIYYVIDTGYGKMKVFNPRMGMDALQVFPISRAASDQRAGRAGRTGPGTCYRLYTESAYLNEmlpsP 913
Cdd:PRK11131  342 LATNVAETSLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVSEGICIRLYSEDDFLSR----P 417
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  914 V---PEIQRTNLGNVVLLLKSLKIDNLLDFDFMDPPPQENILNSMYQLWVLGALN-----NVGGLTDLGWKMVEFPLDPP 985
Cdd:PRK11131  418 EftdPEILRTNLASVILQMTALGLGDIAAFPFVEAPDKRNIQDGVRLLEELGAITtdeqaSAYKLTPLGRQLAQLPVDPR 497
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  986 LAKMLLMGERLDCIDEVLTIVSMLSVPSVFFRPKERAEESDAAREKFFVPESDHLTLLNVY----QQWKEHDY------- 1054
Cdd:PRK11131  498 LARMVLEAQKHGCVREVMIITSALSIQDPRERPMDKQQASDEKHRRFADKESDFLAFVNLWnylqEQQKALSSnqfrrlc 577
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649 1055 RGDWCNdhYLQVkglRKAREVRSQLLDILKQLKIELRSCGPDWDIVRKAICSAYfhnsarLKGVG-------EYVNCRTG 1127
Cdd:PRK11131  578 RTDYLN--YLRV---REWQDIYTQLRQVVKELGIPVNSEPAEYREIHTALLTGL------LSHIGmkdaekqEYTGARNA 646
                         650       660       670       680
                  ....*....|....*....|....*....|....*....|....*...
gi 334187649 1128 MpCHLHPSSALYglGYTPDYVVYHELILTTKEYMQCATSVEPHWLAEL 1175
Cdd:PRK11131  647 R-FSIFPGSGLF--KKPPKWVMVAELVETSRLWGRIAARIEPEWIEPL 691
DEXHc_DHX38 cd17983
DEXH-box helicase domain of DEAH-box helicase 38; DEAH-box helicase 38 (DHX38, also known as ...
558-730 4.72e-116

DEXH-box helicase domain of DEAH-box helicase 38; DEAH-box helicase 38 (DHX38, also known as PRP16) is involved in pre-mRNA splicing. DHX38 belongs to 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: 350741 [Multi-domain]  Cd Length: 173  Bit Score: 358.31  E-value: 4.72e-116
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTINGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIGY 637
Cdd:cd17983     1 LPIFAVRQELLNVIRDNNVVIVVGETGSGKTTQLTQYLHEDGYTDYGMIGCTQPRRVAAMSVAKRVSEEMGVELGEEVGY 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  638 AIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSATLNAQK 717
Cdd:cd17983    81 AIRFEDCTSENTVIKYMTDGILLRESLRDPDLDKYSAIIMDEAHERSLNTDVLFGLLREVVARRRDLKLIVTSATMDADK 160
                         170
                  ....*....|...
gi 334187649  718 FSNFFGSVPIFNI 730
Cdd:cd17983   161 FADFFGNVPIFTI 173
HA2 smart00847
Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino ...
961-1043 1.06e-29

Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.


Pssm-ID: 214852 [Multi-domain]  Cd Length: 82  Bit Score: 113.13  E-value: 1.06e-29
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649    961 LGALNNVGGLTDLGWKMVEFPLDPPLAKMLLMGERLDCIDEVLTIVSMLSVPSvfFRPKERAEESDAAREKFFVPESDHL 1040
Cdd:smart00847    2 LGALDDDGRLTPLGRKMAELPLDPRLAKMLLAAAEFGCLDEILTIVAMLSVGD--PRPKEKREDADAARRRFADPESDHL 79

                    ...
gi 334187649   1041 TLL 1043
Cdd:smart00847   80 TLL 82
HA2 pfam04408
Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in ...
957-1042 1.51e-28

Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.


Pssm-ID: 461295 [Multi-domain]  Cd Length: 104  Bit Score: 110.79  E-value: 1.51e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   957 QLWVLGALNNVGGLTDLGWKMVEFPLDPPLAKMLLMGERLDCIDEVLTIVSMLSVPSVFFRP---KERAEESDAAREKFF 1033
Cdd:pfam04408    4 LLYYLGALDEDGELTPLGRKMAELPLDPRLAKMLLAAAELGCLDEVLTIVAALSVRDPFVQPnflDPRSAAKAARRRRRA 83
                           90       100
                   ....*....|....*....|.
gi 334187649  1034 ------------VPESDHLTL 1042
Cdd:pfam04408   84 adekarakfarlDLEGDHLTL 104
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
155-226 8.78e-04

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 43.34  E-value: 8.78e-04
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 334187649   155 ETPRSRQRNTYDEMDHYRRRESYRQSDRDYHGEKRRRYNSD-----WRTPGRSDWDDGQDEWERSPHGDRGSSYSRR 226
Cdd:TIGR01642   10 EKSRGRDRDRSSERPRRRSRDRSRFRDRHRRSRERSYREDSrprdrRRYDSRSPRSLRYSSVRRSRDRPRRRSRSVR 86
 
Name Accession Description Interval E-value
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
558-1177 3.36e-170

HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 526.19  E-value: 3.36e-170
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTINGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIGY 637
Cdd:COG1643    10 LPVSAVLPELLAALRAHQVVVLAAPPGAGKTTQLPLALLELGWGAGGRIGMLEPRRLAARAAAERMAEELGEPVGETVGY 89
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  638 AIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRR-DFKLIVTSATLNAQ 716
Cdd:COG1643    90 RVRFEDKVSAATRIEVVTEGILLRELQRDPELEGVDTVIFDEFHERSLNADLLLALLLDLQPALRpDLKLLVMSATLDAE 169
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  717 KFSNFFGSVPIFNIPGRTFPVNILY--SKTPCEDYVEA---AVKQAMTIHitspPGDILIFMTGQDEIEAAcfslkerME 791
Cdd:COG1643   170 RFARLLGDAPVIESSGRTYPVEVRYrpLPADERDLEDAvadAVREALAEE----PGDILVFLPGEREIRRT-------AE 238
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  792 QLvssSSREITNLLILPIYSQLPADLQAKIFQKPEDGARKCIVATNIAETSLTVDGIYYVIDTGYGKMKVFNPRMGMDAL 871
Cdd:COG1643   239 AL---RGRLPPDTEILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRYVIDSGLARIPRYDPRSGVTRL 315
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  872 QVFPISRAASDQRAGRAGRTGPGTCYRLYTESAYLNeMLPSPVPEIQRTNLGNVVLLLKSLKIDNLLDFDFMDPPPQENI 951
Cdd:COG1643   316 PTERISQASANQRAGRAGRLAPGICYRLWSEEDFAR-RPAFTDPEILRADLASLILELAAWGLGDPEDLPFLDPPPARAI 394
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  952 lNSMYQLWV-LGALNNVGGLTDLGWKMVEFPLDPPLAKMLLMGERLDCIDEVLTIVSMLSVPsvffrpkeraeesDAARE 1030
Cdd:COG1643   395 -ADARALLQeLGALDADGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILAALLSER-------------DPRRG 460
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649 1031 KffvPESDHLTLLNVYQQWKEHDyrgdwcnDHYLQVKGLRKAREVRSQLldiLKQLKIELRSCGPDWDIVRKAICSAYFH 1110
Cdd:COG1643   461 A---AGSDLLARLNLWRRLREQQ-------REFLSYLRLREWRDLARQL---RRLLGEGANEEPADYEAIGLLLALAYPD 527
                         570       580       590       600       610       620
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334187649 1111 NSARLKG-VGEYVnCRTGMPCHLHPSSALYGlgytPDYVVYHELILTTKEY-MQCATSVEPHWLAELGP 1177
Cdd:COG1643   528 RIARRRGeGGRYL-LARGRGAALFPGSPLAK----KEWLVAAELVGGAAEArIRLAAPIDPEWLEELAA 591
DEAH_box_HrpA TIGR01967
RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ...
556-1177 3.06e-154

RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing. The HrpA/B homolog from Borrelia is 500 amino acids shorter but appears to be derived from HrpA rather than HrpB. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 273900 [Multi-domain]  Cd Length: 1283  Bit Score: 496.98  E-value: 3.06e-154
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   556 QYLPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTINGIVGCTQPRRVAAMSVAKRVSEEMETELGDKI 635
Cdd:TIGR01967   64 DNLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGTPLGEKV 143
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   636 GYAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSATLNA 715
Cdd:TIGR01967  144 GYKVRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDLKIIITSATIDP 223
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   716 QKFSNFFGSVPIFNIPGRTFPVNILYS-----KTPCEDYVEAAVKQAMTIHITSPPGDILIFMTGQDEIeaacfslKERM 790
Cdd:TIGR01967  224 ERFSRHFNNAPIIEVSGRTYPVEVRYRplveeQEDDDLDQLEAILDAVDELFAEGPGDILIFLPGEREI-------RDAA 296
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   791 EQLvssSSREITNLLILPIYSQLPADLQAKIFQkPEDGaRKCIVATNIAETSLTVDGIYYVIDTGYGKMKVFNPRMGMDA 870
Cdd:TIGR01967  297 EIL---RKRNLRHTEILPLYARLSNKEQQRVFQ-PHSG-RRIVLATNVAETSLTVPGIHYVIDTGTARISRYSYRTKVQR 371
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   871 LQVFPISRAASDQRAGRAGRTGPGTCYRLYTESAYLNEMLPSPvPEIQRTNLGNVVLLLKSLKIDNLLDFDFMDPPPQEN 950
Cdd:TIGR01967  372 LPIEPISQASANQRKGRCGRVAPGICIRLYSEEDFNSRPEFTD-PEILRTNLASVILQMLALRLGDIAAFPFIEAPDPRA 450
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   951 ILNSMYQLWVLGALN-NVGG--LTDLGWKMVEFPLDPPLAKMLLMGERLDCIDEVLTIVSMLSVPSVFFRPKERAEESDA 1027
Cdd:TIGR01967  451 IRDGFRLLEELGALDdDEAEpqLTPIGRQLAQLPVDPRLARMLLEAHRLGCLQEVLIIASALSIQDPRERPMEKQQAADQ 530
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  1028 AREKFFVPESDHLTLLNVYQQWKEHD-------YRgDWCNDHYLQVKGLRKAREVRSQLLDILKQLKIELRSCGPDWDIV 1100
Cdd:TIGR01967  531 AHARFKDPRSDFLSRVNLWRHIEEQRqalsanqFR-NACRKQYLNYLRVREWQDIYRQLTQVVKELGLKLNEEPADYDAI 609
                          570       580       590       600       610       620       630
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 334187649  1101 RKAICSAYFHNSARLKGVGEYVNCRtGMPCHLHPSSALYGLGytPDYVVYHELILTTKEYMQCATSVEPHWLAELGP 1177
Cdd:TIGR01967  610 HKALLSGLLSQIGMKDEKHEYDGAR-GRKFHIFPGSPLFKKP--PKWVMAAELVETSKLYARLVAKIEPEWVEPVAG 683
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
533-1175 5.89e-135

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 444.89  E-value: 5.89e-135
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  533 AQHMKKGEAVSEFAMSKTMAEQRQY----------LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTI 602
Cdd:PRK11131   38 AQQAIFQEIAKEIAQAAQRVLLREAarpeitypenLPVSQKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGRGV 117
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  603 NGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIGYAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHE 682
Cdd:PRK11131  118 KGLIGHTQPRRLAARTVANRIAEELETELGGCVGYKVRFNDQVSDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHE 197
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  683 RSLNTDVLFGILKKVVARRRDFKLIVTSATLNAQKFSNFFGSVPIFNIPGRTFPVNILY------SKTPCEDYVEA---A 753
Cdd:PRK11131  198 RSLNIDFILGYLKELLPRRPDLKVIITSATIDPERFSRHFNNAPIIEVSGRTYPVEVRYrpiveeADDTERDQLQAifdA 277
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  754 VKQAMtihiTSPPGDILIFMTGQDEIEAACFSLkermeqlvssSSREITNLLILPIYSQLPADLQAKIFQkPEDGaRKCI 833
Cdd:PRK11131  278 VDELG----REGPGDILIFMSGEREIRDTADAL----------NKLNLRHTEILPLYARLSNSEQNRVFQ-SHSG-RRIV 341
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  834 VATNIAETSLTVDGIYYVIDTGYGKMKVFNPRMGMDALQVFPISRAASDQRAGRAGRTGPGTCYRLYTESAYLNEmlpsP 913
Cdd:PRK11131  342 LATNVAETSLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVSEGICIRLYSEDDFLSR----P 417
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  914 V---PEIQRTNLGNVVLLLKSLKIDNLLDFDFMDPPPQENILNSMYQLWVLGALN-----NVGGLTDLGWKMVEFPLDPP 985
Cdd:PRK11131  418 EftdPEILRTNLASVILQMTALGLGDIAAFPFVEAPDKRNIQDGVRLLEELGAITtdeqaSAYKLTPLGRQLAQLPVDPR 497
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  986 LAKMLLMGERLDCIDEVLTIVSMLSVPSVFFRPKERAEESDAAREKFFVPESDHLTLLNVY----QQWKEHDY------- 1054
Cdd:PRK11131  498 LARMVLEAQKHGCVREVMIITSALSIQDPRERPMDKQQASDEKHRRFADKESDFLAFVNLWnylqEQQKALSSnqfrrlc 577
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649 1055 RGDWCNdhYLQVkglRKAREVRSQLLDILKQLKIELRSCGPDWDIVRKAICSAYfhnsarLKGVG-------EYVNCRTG 1127
Cdd:PRK11131  578 RTDYLN--YLRV---REWQDIYTQLRQVVKELGIPVNSEPAEYREIHTALLTGL------LSHIGmkdaekqEYTGARNA 646
                         650       660       670       680
                  ....*....|....*....|....*....|....*....|....*...
gi 334187649 1128 MpCHLHPSSALYglGYTPDYVVYHELILTTKEYMQCATSVEPHWLAEL 1175
Cdd:PRK11131  647 R-FSIFPGSGLF--KKPPKWVMVAELVETSRLWGRIAARIEPEWIEPL 691
DEXHc_DHX38 cd17983
DEXH-box helicase domain of DEAH-box helicase 38; DEAH-box helicase 38 (DHX38, also known as ...
558-730 4.72e-116

DEXH-box helicase domain of DEAH-box helicase 38; DEAH-box helicase 38 (DHX38, also known as PRP16) is involved in pre-mRNA splicing. DHX38 belongs to 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: 350741 [Multi-domain]  Cd Length: 173  Bit Score: 358.31  E-value: 4.72e-116
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTINGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIGY 637
Cdd:cd17983     1 LPIFAVRQELLNVIRDNNVVIVVGETGSGKTTQLTQYLHEDGYTDYGMIGCTQPRRVAAMSVAKRVSEEMGVELGEEVGY 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  638 AIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSATLNAQK 717
Cdd:cd17983    81 AIRFEDCTSENTVIKYMTDGILLRESLRDPDLDKYSAIIMDEAHERSLNTDVLFGLLREVVARRRDLKLIVTSATMDADK 160
                         170
                  ....*....|...
gi 334187649  718 FSNFFGSVPIFNI 730
Cdd:cd17983   161 FADFFGNVPIFTI 173
DEXHc_DHX8 cd17971
DEXH-box helicase domain of DEAH-box helicase 8; DEAH-box helicase 8 (DHX8 ,also known as ...
553-731 3.06e-93

DEXH-box helicase domain of DEAH-box helicase 8; DEAH-box helicase 8 (DHX8 ,also known as pre-mRNA-splicing factor ATP-dependent RNA helicase PRP22) acts late in the splicing of pre-mRNA and mediates the release of the spliced mRNA from spliceosomes. DHX8 belongs to 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: 350729 [Multi-domain]  Cd Length: 179  Bit Score: 296.70  E-value: 3.06e-93
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  553 EQRQYLPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTINGIVGCTQPRRVAAMSVAKRVSEEMETELG 632
Cdd:cd17971     1 EQRESLPIYKLKEQLIQAVHDNQILVVIGETGSGKTTQITQYLAEAGYTSRGKIGCTQPRRVAAMSVAKRVAEEFGCCLG 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  633 DKIGYAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSAT 712
Cdd:cd17971    81 QEVGYTIRFEDCTSPETVIKYMTDGMLLRECLIDPDLSQYSVIMLDEAHERTIHTDVLFGLLKKTVQKRPDLKLIVTSAT 160
                         170
                  ....*....|....*....
gi 334187649  713 LNAQKFSNFFGSVPIFNIP 731
Cdd:cd17971   161 LDAVKFSQYFYEAPIFTIP 179
DEXHc_RHA-like cd17917
DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) ...
574-730 1.94e-85

DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) family includes RHA, also called DEAH-box helicase 9 (DHX9), DHX8, DHX15-16, DHX32-38, and many others. The RHA family belongs to 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: 438707 [Multi-domain]  Cd Length: 159  Bit Score: 274.34  E-value: 1.94e-85
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  574 NQVIVVVGETGSGKTTQLTQYLHEDGYT--INGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIGYAIRFEDVTGPNTVI 651
Cdd:cd17917     1 NQVVVIVGETGSGKTTQVPQFLLEDGLAkgGKGRIVCTQPRRIAAISVAERVAEERGEKLGEEVGYQIRFESKTSSKTRI 80
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334187649  652 KYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSATLNAQKFSNFFGSVPIFNI 730
Cdd:cd17917    81 KFCTDGILLRELLSDPLLSGYSHVILDEAHERSLDTDFLLGLLKDLLRKRPDLKVILMSATLDAEKFSSYFGGAPVIHI 159
DEXHc_DHX33 cd17978
DEXH-box helicase domain of DEAH-box helicase 33; DEAH-box helicase 33 (DHX33) stimulates RNA ...
558-730 2.85e-82

DEXH-box helicase domain of DEAH-box helicase 33; DEAH-box helicase 33 (DHX33) stimulates RNA polymerase I transcription of the 47S precursor rRNA. DHX33 belongs to 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: 438710 [Multi-domain]  Cd Length: 178  Bit Score: 266.53  E-value: 2.85e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTINGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIGY 637
Cdd:cd17978     1 LPIYSARKRLLEELRKHDTVIIIGETGSGKTTQIPQYLYEAGFARGGMIGITQPRRVAAVSVAKRVAEEMGVELGQLVGY 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  638 AIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRD-----FKLIVTSAT 712
Cdd:cd17978    81 SVRFDDVTSEETRIKYMTDGMLLREAIGDPLLSKYSVIILDEAHERTVHTDVLFGLVKSAQRRRKEqklspLKVIIMSAT 160
                         170
                  ....*....|....*...
gi 334187649  713 LNAQKFSNFFGSVPIFNI 730
Cdd:cd17978   161 LDADLFSEYFNGAPVLYI 178
DEXHc_DHX16 cd17974
DEXH-box helicase domain of DEAH-box helicase 16; DEAH-box helicase 16 (DHX16) is probably ...
558-730 1.44e-79

DEXH-box helicase domain of DEAH-box helicase 16; DEAH-box helicase 16 (DHX16) is probably involved in pre-mRNA splicing. DHX16 belongs to 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: 350732 [Multi-domain]  Cd Length: 174  Bit Score: 258.97  E-value: 1.44e-79
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYT-INGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIG 636
Cdd:cd17974     1 LPVYPYRDDLLAAVKEHQVLIIVGETGSGKTTQIPQYLHEAGYTkGGGKIGCTQPRRVAAMSVAARVAEEMGVKLGNEVG 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  637 YAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSATLNAQ 716
Cdd:cd17974    81 YSIRFEDCTSEKTVLKYMTDGMLLREFLTEPDLASYSVMIIDEAHERTLHTDILFGLVKDIARFRPDLKLLISSATMDAE 160
                         170
                  ....*....|....
gi 334187649  717 KFSNFFGSVPIFNI 730
Cdd:cd17974   161 KFSAFFDDAPIFRI 174
DEXHc_DHX15 cd17973
DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA ...
553-730 2.16e-78

DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA processing factor involved in disassembly of spliceosomes after the release of mature mRNA. DHX15 belongs to 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: 438709 [Multi-domain]  Cd Length: 187  Bit Score: 256.19  E-value: 2.16e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  553 EQRQYLPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTING--IVGCTQPRRVAAMSVAKRVSEEMETE 630
Cdd:cd17973     8 EKRRELPVWEQKEDFLKLLKNNQILVLVGETGSGKTTQIPQFVLDDELPHQPkkLVACTQPRRVAAMSVAQRVAEEMDVK 87
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  631 LGDKIGYAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTS 710
Cdd:cd17973    88 LGEEVGYSIRFEDCSSAKTILKYMTDGMLLREAMSDPLLSRYSVIILDEAHERTLATDILMGLLKEVVRRRPDLKLIVMS 167
                         170       180
                  ....*....|....*....|
gi 334187649  711 ATLNAQKFSNFFGSVPIFNI 730
Cdd:cd17973   168 ATLDAGKFQKYFDNAPLLKV 187
PRK11664 PRK11664
ATP-dependent RNA helicase HrpB; Provisional
558-1009 9.51e-74

ATP-dependent RNA helicase HrpB; Provisional


Pssm-ID: 236950 [Multi-domain]  Cd Length: 812  Bit Score: 262.94  E-value: 9.51e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLT-QYLHEDGytINGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIG 636
Cdd:PRK11664    4 LPVAAVLPELLTALKTAPQVLLKAPTGAGKSTWLPlQLLQHGG--INGKIIMLEPRRLAARNVAQRLAEQLGEKPGETVG 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  637 YAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKV-VARRRDFKLIVTSATLNA 715
Cdd:PRK11664   82 YRMRAESKVGPNTRLEVVTEGILTRMIQRDPELSGVGLVILDEFHERSLQADLALALLLDVqQGLRDDLKLLIMSATLDN 161
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  716 QKFSNFFGSVPIFNIPGRTFPVNILYSKTPCEDYVEAAVKQAMTIHITSPPGDILIFMTGQDEIEaacfSLKERMEQLVS 795
Cdd:PRK11664  162 DRLQQLLPDAPVIVSEGRSFPVERRYQPLPAHQRFDEAVARATAELLRQESGSLLLFLPGVGEIQ----RVQEQLASRVA 237
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  796 SssreitNLLILPIYSQLPADLQAKIFQKPEDGARKCIVATNIAETSLTVDGIYYVIDTGYGKMKVFNPRMGMDALQVFP 875
Cdd:PRK11664  238 S------DVLLCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRLVVDSGLERVARFDPKTGLTRLVTQR 311
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  876 ISRAASDQRAGRAGRTGPGTCYRLYTESAYlnEMLPS-PVPEIQRTNLGNVVLLLKSLKIDNLLDFDFMDPPPQENILNS 954
Cdd:PRK11664  312 ISQASMTQRAGRAGRLEPGICLHLYSKEQA--ERAAAqSEPEILHSDLSGLLLELLQWGCHDPAQLSWLDQPPAAALAAA 389
                         410       420       430       440       450
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 334187649  955 MYQLWVLGALNNVGGLTDLGWKMVEFPLDPPLAKMLLMGERLDciDEVLTIVSML 1009
Cdd:PRK11664  390 KRLLQQLGALDGQGRLTARGRKMAALGNDPRLAAMLVAAKEDD--EAALATAAKL 442
SF2_C_RHA cd18791
C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A ...
735-900 2.21e-72

C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A (RHA) family includes RHA, also called DEAH-box helicase 9 (DHX9), DHX8, DHX15-16, DHX32-38, and many others. The RHA family members 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: 350178 [Multi-domain]  Cd Length: 171  Bit Score: 238.20  E-value: 2.21e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  735 FPVNILYSKTP-----------CEDYVEAAVKQAMTIHITSPPGDILIFMTGQDEIEAACfslkERMEQLVSSSSREitN 803
Cdd:cd18791     1 FPVEVYYLEDIlellgissekeDPDYVDAAVRLILQIHRTEEPGDILVFLPGQEEIERLC----ELLREELLSPDLG--K 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  804 LLILPIYSQLPADLQAKIFQKPEDGARKCIVATNIAETSLTVDGIYYVIDTGYGKMKVFNPRMGMDALQVFPISRAASDQ 883
Cdd:cd18791    75 LLVLPLHSSLPPEEQQRVFEPPPPGVRKVVLATNIAETSITIPGVVYVIDSGLVKEKVYDPRTGLSSLVTVWISKASAEQ 154
                         170
                  ....*....|....*..
gi 334187649  884 RAGRAGRTGPGTCYRLY 900
Cdd:cd18791   155 RAGRAGRTRPGKCYRLY 171
DEXHc_DHX40 cd17984
DEXH-box helicase domain of DEAH-box helicase 40; DEAH-box helicase 40 (DHX40) belongs to the ...
558-730 1.03e-68

DEXH-box helicase domain of DEAH-box helicase 40; DEAH-box helicase 40 (DHX40) belongs to 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: 350742 [Multi-domain]  Cd Length: 178  Bit Score: 228.20  E-value: 1.03e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTINGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIGY 637
Cdd:cd17984     1 LPIQKQRKKLVQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRRVAAISVAQRVAEEMKCTLGSKVGY 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  638 AIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVV-----ARRRDFKLIVTSAT 712
Cdd:cd17984    81 QVRFDDCSSKETAIKYMTDGCLLRHILADPNLTKYSVIILDEAHERSLTTDILFGLLKKLFqekspNRKEHLKVVVMSAT 160
                         170
                  ....*....|....*...
gi 334187649  713 LNAQKFSNFFGSVPIFNI 730
Cdd:cd17984   161 LELAKLSAFFGNCPVFDI 178
DEXHc_DHX35 cd17980
DEXH-box helicase domain of DEAH-box helicase 35; DHX35 plays a role in colorectal cancers and ...
558-722 6.49e-68

DEXH-box helicase domain of DEAH-box helicase 35; DHX35 plays a role in colorectal cancers and seems to be associated with risk to thyroid cancers. It also has been shown to positively regulate poxviruses, such as Myxoma virus. DEAH-box helicase 35 (DHX35) belongs to 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: 350738 [Multi-domain]  Cd Length: 185  Bit Score: 226.20  E-value: 6.49e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTING-IVGCTQPRRVAAMSVAKRVSEEMETELGDKIG 636
Cdd:cd17980     1 LPVFKLRNHILYLVENYQTIVIVGETGCGKSTQIPQYLAEAGWTAGGrVVGCTQPRRVAAVTVAGRVAEEMGAVLGHEVG 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  637 YAIRFEDVTGP-NTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSATLNA 715
Cdd:cd17980    81 YCIRFDDCTDPqATRIKFLTDGMLVREMMLDPLLTKYSVIMLDEAHERTLYTDILIGLLKKIQKKRGDLRLIVASATLDA 160

                  ....*..
gi 334187649  716 QKFSNFF 722
Cdd:cd17980   161 EKFRDFF 167
DEXHc_HrpA cd17989
DEXH-box helicase domain of ATP-dependent RNA helicase HrpA; HrpA is part of the HrpB-HrpA ...
558-730 1.13e-65

DEXH-box helicase domain of ATP-dependent RNA helicase HrpA; HrpA is part of the HrpB-HrpA two-partner secretion (TPS) system, a secretion pathway important to the secretion of large virulence-associated proteins. HrpA belongs to 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: 350747 [Multi-domain]  Cd Length: 173  Bit Score: 219.63  E-value: 1.13e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTINGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIGY 637
Cdd:cd17989     1 LPVSQKRDEIAKAIAENQVVIIAGETGSGKTTQLPKICLELGRGIRGLIGHTQPRRLAARSVAERIAEELKTELGGAVGY 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  638 AIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSATLNAQK 717
Cdd:cd17989    81 KVRFTDQTSDETCVKLMTDGILLAETQTDRYLRAYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDLKVIITSATIDAER 160
                         170
                  ....*....|...
gi 334187649  718 FSNFFGSVPIFNI 730
Cdd:cd17989   161 FSRHFNNAPIIEV 173
DEXHc_DHX37 cd17982
DEXH-box helicase domain of DEAH-box helicase 37; DHX37 plays a role in the development of the ...
558-726 4.95e-59

DEXH-box helicase domain of DEAH-box helicase 37; DHX37 plays a role in the development of the human nervous system and has been linked to schizophrenia. It also negatively regulates poxviruses such as Myxoma virus. DEAH-box helicase 37 (DHX37) belongs to 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: 350740 [Multi-domain]  Cd Length: 191  Bit Score: 201.04  E-value: 4.95e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYT-----INGIVGCTQPRRVAAMSVAKRVSEEMeTELG 632
Cdd:cd17982     1 LPILAEEQEIMEAINENPVVIICGETGSGKTTQVPQFLYEAGFGspesdNPGMIGITQPRRVAAVSMAKRVAEEL-NVFG 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  633 DKIGYAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDF-------- 704
Cdd:cd17982    80 KEVSYQIRYDSTVSENTKIKFMTDGVLLKEIQTDFLLRKYSVIIIDEAHERSVNTDILIGMLSRIVPLRAKLylqdqtvk 159
                         170       180
                  ....*....|....*....|....*..
gi 334187649  705 --KLIVTSATLNAQKFSN---FFGSVP 726
Cdd:cd17982   160 plKLVIMSATLRVEDFTEnklLFPRPP 186
DEXHc_DHX34 cd17979
DEXH-box helicase domain of DEAH-box helicase 34; DEAH-box helicase 34 (DHX34) plays a role in ...
558-730 8.86e-55

DEXH-box helicase domain of DEAH-box helicase 34; DEAH-box helicase 34 (DHX34) plays a role in the nonsense-mediated decay (NMD), a surveillance mechanism that degrades aberrant mRNAs. DHX34 belongs to 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: 350737 [Multi-domain]  Cd Length: 170  Bit Score: 188.04  E-value: 8.86e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTIngiVGCTQPRRVAAMSVAKRVSEEMETELGDKIGY 637
Cdd:cd17979     1 LPIAQYREKIIELLKTHQVVIVAGDTGCGKSTQVPQYLLAAGFRH---IACTQPRRIACISLAKRVAFESLNQYGSKVAY 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  638 AIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSATLNAQK 717
Cdd:cd17979    78 QIRFERTRTLATKLLFLTEGLLLRQIQRDASLPQYNVLILDEVHERHLHGDFLLGVLRCLLRLRPDLKLILMSATINIEL 157
                         170
                  ....*....|...
gi 334187649  718 FSNFFGSVPIFNI 730
Cdd:cd17979   158 FSGYFEGAPVVQV 170
DEXHc_DHX36 cd17981
DEXH-box helicase domain of DEAH-box helicase 36; DEAH-box helicase 36 (DHX36, also known as ...
558-730 2.80e-49

DEXH-box helicase domain of DEAH-box helicase 36; DEAH-box helicase 36 (DHX36, also known as G4-resolvase 1 or G4R1, MLE-like protein 1 and RNA helicase associated with AU-rich element or RHAU) unwinds a G4-quadruplex in human telomerase RNA. DHX36 belongs to 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: 350739 [Multi-domain]  Cd Length: 180  Bit Score: 172.72  E-value: 2.80e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDgYTING------IVgCTQPRRVAAMSVAKRVSEEM--ET 629
Cdd:cd17981     1 LPSYGMKQEIINMIDNNQVTVISGETGCGKTTQVTQFILDD-AIERGkgsscrIV-CTQPRRISAISVAERVAAERaeSC 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  630 ELGDKIGYAIRFEDVTGPNTV-IKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIV 708
Cdd:cd17981    79 GLGNSTGYQIRLESRKPRKQGsILYCTTGIVLQWLQSDPHLSNVSHLVLDEIHERNLQSDVLMGIVKDLLPFRSDLKVIL 158
                         170       180
                  ....*....|....*....|..
gi 334187649  709 TSATLNAQKFSNFFGSVPIFNI 730
Cdd:cd17981   159 MSATLNAEKFSDYFNNCPMIHI 180
DEXHc_DHX29 cd17975
DEXH-box helicase domain of DEAH-box helicase 29; DEAH-box helicase 29 (DHX29) is a part of ...
558-730 3.29e-47

DEXH-box helicase domain of DEAH-box helicase 29; DEAH-box helicase 29 (DHX29) is a part of the 43S pre-initiation complex involved in translation initiation of mRNAs with structured 5'-UTRs. DHX29 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: 350733 [Multi-domain]  Cd Length: 183  Bit Score: 167.01  E-value: 3.29e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHED-----GYTINGIVGCTQPRRVAAMSVAKRVSEEMETELG 632
Cdd:cd17975     1 LPVFKHRESILETLKRHRVVVVAGETGSGKSTQVPQFLLEDlllngGTAQKCNIVCTQPRRISAMSLATRVCEELGCESG 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  633 -----DKIGYAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLI 707
Cdd:cd17975    81 pggknSLCGYQIRMESRTGEATRLLYCTTGVLLRKLQEDGLLSSISHIIVDEVHERSVQSDFLLIILKEILHKRSDLHLI 160
                         170       180
                  ....*....|....*....|...
gi 334187649  708 VTSATLNAQKFSNFFGSVPIFNI 730
Cdd:cd17975   161 LMSATVDCEKFSSYFTHCPILRI 183
DEXHc_YTHDC2 cd17987
DEXH-box helicase domain of YTH domain containing 2; YTH domain containing 2 (YTHDC2) ...
558-730 3.53e-45

DEXH-box helicase domain of YTH domain containing 2; YTH domain containing 2 (YTHDC2) regulates mRNA translation and stability via binding to N6-methyladenosine, a modified RNA nucleotide enriched in the stop codons and 3' UTRs of eukaryotic messenger RNAs. YTHDC2 belongs to 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: 350745 [Multi-domain]  Cd Length: 176  Bit Score: 161.15  E-value: 3.53e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTiNGI---VGCTQPRRVAAMSVAKRVSEEMETELGDK 634
Cdd:cd17987     1 LPVFEKQEQIVRIIKENKVVLIVGETGSGKTTQIPQFLLDDCYA-NGIpcrIFCTQPRRLAAIAVAERVAAERGEKIGQT 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  635 IGYAIRFEDVTGPNTVIKYMTDGVLLRETL-KDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSATL 713
Cdd:cd17987    80 VGYQIRLESRVSPKTLLTFCTNGVLLRTLMaGDSALSTVTHVIVDEVHERDRFSDFLLTKLRDILQKHPNLKLILSSAAL 159
                         170
                  ....*....|....*..
gi 334187649  714 NAQKFSNFFGSVPIFNI 730
Cdd:cd17987   160 DVNLFIRYFGSCPVIYI 176
DEXHc_DHX57 cd17985
DEXH-box helicase domain of DEAH-box helicase 57; DEAH-box helicase 57 (DHX57) belongs to the ...
558-730 8.07e-44

DEXH-box helicase domain of DEAH-box helicase 57; DEAH-box helicase 57 (DHX57) belongs to 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: 350743 [Multi-domain]  Cd Length: 177  Bit Score: 157.31  E-value: 8.07e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYT-----INGIVgCTQPRRVAAMSVAKRVSEEMETELG 632
Cdd:cd17985     1 LPAWQERETILELLEKHQVLVISGMTGCGKTTQIPQFILDNSLQgpplpVANII-CTQPRRISAISVAERVAQERAERVG 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  633 DKIGYAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSAT 712
Cdd:cd17985    80 QSVGYQIRLESVKSSATRLLYCTTGVLLRRLEGDPTLQGVTHVIVDEVHERTEESDFLLLVLKDLMVQRPDLKVILMSAT 159
                         170
                  ....*....|....*...
gi 334187649  713 LNAQKFSNFFGSVPIFNI 730
Cdd:cd17985   160 LNAELFSDYFNSCPVIHI 177
DEXHc_DHX9 cd17972
DEXH-box helicase domain of DEAH-box helicase 9; DEAH-box helicase 9 (DHX9, also known as ...
549-730 4.41e-42

DEXH-box helicase domain of DEAH-box helicase 9; DEAH-box helicase 9 (DHX9, also known as ATP-dependent RNA helicase A or RHA and leukophysin or LKP) plays an important role in many cellular processes, including regulation of DNA replication, transcription, translation, microRNA biogenesis, RNA processing and transport, and maintenance of genomic stability. DHX9 belongs to 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: 350730 [Multi-domain]  Cd Length: 234  Bit Score: 154.22  E-value: 4.41e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  549 KTMAEQRQYLPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHED------GYTINGIVgcTQPRRVAAMSVAKR 622
Cdd:cd17972    50 QQILQERELLPVKKFREEILEAISNNPVVIIRGATGCGKTTQVPQYILDDfiqndrAAECNIVV--TQPRRISAVSVAER 127
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  623 VSEEMETELGDKIGYAIRFEDVTG-PNTVIKYMTDGVLLRETlkDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARR 701
Cdd:cd17972   128 VAFERGEEVGKSCGYSVRFESVLPrPHASILFCTVGVLLRKL--EAGIRGISHVIVDEIHERDINTDFLLVVLRDVVQAY 205
                         170       180
                  ....*....|....*....|....*....
gi 334187649  702 RDFKLIVTSATLNAQKFSNFFGSVPIFNI 730
Cdd:cd17972   206 PDLRVILMSATIDTSMFCEYFFNCPVIEV 234
DEXHc_HrpB cd17990
DEXH-box helicase domain of ATP-dependent helicase HrpB; HrpB is part of the HrpB-HrpA ...
558-728 1.13e-40

DEXH-box helicase domain of ATP-dependent helicase HrpB; HrpB is part of the HrpB-HrpA two-partner secretion (TPS) system, a secretion pathway important to the secretion of large virulence-associated proteins. HrpB belongs to 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: 438711 [Multi-domain]  Cd Length: 174  Bit Score: 147.86  E-value: 1.13e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLT-QYLHEDGYTiNGIVGCTQPRRVAAMSVAKRVSEEMETELGDKIG 636
Cdd:cd17990     1 LPIAAVLPALRAALDAGGQVVLEAPPGAGKTTRVPlALLAELWIA-GGKIIVLEPRRVAARAAARRLATLLGEAPGETVG 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  637 YAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVV-ARRRDFKLIVTSATLNA 715
Cdd:cd17990    80 YRVRGESRVGRRTRVEVVTEGVLLRRLQRDPELSGVGAVILDEFHERSLDADLALALLLEVQqLLRDDLRLLAMSATLDG 159
                         170
                  ....*....|...
gi 334187649  716 QKFSNFFGSVPIF 728
Cdd:cd17990   160 DGLAALLPEAPVV 172
DEXHc_DHX30 cd17976
DEXH-box helicase domain of DEAH-box helicase 30; DEAH-box helicase 30 (DHX30) plays an ...
558-730 9.16e-39

DEXH-box helicase domain of DEAH-box helicase 30; DEAH-box helicase 30 (DHX30) plays an important role in the assembly of the mitochondrial large ribosomal subunit. DHX30 belongs to 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: 350734 [Multi-domain]  Cd Length: 178  Bit Score: 142.62  E-value: 9.16e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHEDGYTINGIVGC----TQPRRVAAMSVAKRVSEEMETELGD 633
Cdd:cd17976     1 LPVDSHKESILSAIEQNPVVVISGDTGCGKTTRIPQFILEDYVLRGRGARCnvviTQPRRISAVSVAQRVAHELGPNLRR 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  634 KIGYAIRFEDVTGPNT-VIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSAT 712
Cdd:cd17976    81 NVGYQVRLESRPPPRGgALLFCTVGVLLKKLQSNPRLEGVSHVIVDEVHERDVNTDFLLILLKGVLQLNPELRVVLMSAT 160
                         170
                  ....*....|....*...
gi 334187649  713 LNAQKFSNFFGSVPIFNI 730
Cdd:cd17976   161 GDNQRLSRYFGGCPVVRV 178
DEXHc_DHX32 cd17977
DEXH-box helicase domain of DEAH-box helicase 32; DEAH-box helicase 32 (DHX32) belongs to the ...
558-727 4.76e-38

DEXH-box helicase domain of DEAH-box helicase 32; DEAH-box helicase 32 (DHX32) belongs to 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: 350735 [Multi-domain]  Cd Length: 176  Bit Score: 140.73  E-value: 4.76e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYLHE---DGYTINGIVGCTQPRRVAAMSVAKRVSEEMETELGDK 634
Cdd:cd17977     1 LPVWEAKYEFMESLAHNQIVIVSGDAKTGKSSQIPQWCAEyclSAHYQHGVVVCTQVHKQTAVWLALRVADEMDVNIGHE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  635 IGYAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSATLN 714
Cdd:cd17977    81 VGYVIPFENCCTNETILRYCTDDMLLREMMSDPLLESYGVIILDDAHERTVSTDVLLGLLKDVLLSRPELKLVIITCPHL 160
                         170
                  ....*....|...
gi 334187649  715 AQKFSNFFGSVPI 727
Cdd:cd17977   161 SSKLLSYYGNVPL 173
DEXHc_TDRD9 cd17988
DEXH-box helicase domain of tudor domain containing 9; Tudor domain containing 9 (TDRD9, also ...
558-737 2.55e-37

DEXH-box helicase domain of tudor domain containing 9; Tudor domain containing 9 (TDRD9, also known as HIG-1or NET54 or C14orf75) is a part of the nuclear PIWI-interacting RNA (piRNA) pathway essential for transposon silencing and male fertility TDRD9 belongs to 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: 350746 [Multi-domain]  Cd Length: 180  Bit Score: 138.79  E-value: 2.55e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVVGETGSGKTTQLTQYL----HEDGYTINGIVgcTQPRRVAAMSVAKRVSEEMETELGD 633
Cdd:cd17988     1 LPIYAKREEILSLIEANSVVIIKGATGCGKTTQLPQFIldhyYKRGKYCNIVV--TQPRRIAAISIARRVSQEREWTLGS 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  634 KIGYAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVA-RRRDFKLIVTSAT 712
Cdd:cd17988    79 LVGYQVGLERPASEETRLIYCTTGVLLQKLINNKTLTEYTHIILDEVHERDQELDFLLLVVRRLLRtNSRHVKIILMSAT 158
                         170       180
                  ....*....|....*....|....*
gi 334187649  713 LNAQKFSNFFGSVpifNIPGRTFPV 737
Cdd:cd17988   159 ISCKEFADYFTTP---NNPAYVFEV 180
DEXQc_DQX1 cd17986
DEXQ-box helicase domain of DEAQ-box RNA dependent ATPase 1; DEAQ-box RNA dependent ATPase 1 ...
558-730 5.33e-37

DEXQ-box helicase domain of DEAQ-box RNA dependent ATPase 1; DEAQ-box RNA dependent ATPase 1 (DQX1) belongs to 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: 350744 [Multi-domain]  Cd Length: 177  Bit Score: 137.72  E-value: 5.33e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  558 LPIFSVRDELLQVIRENQVIVVV-GETGSGKTTQLTQYLHEDGYTIN---GIVGCTQPRRVAAMSVAKRVSEEMETELGD 633
Cdd:cd17986     1 LPIWAAKFTFLEQLESPSGIVLVsGEPGSGKSTQVPQWCAEFALSRGfqkGQVTVTQPHPLAARSLALRVADEMDLNLGH 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  634 KIGYAIRFEDVTGPNTVIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSATL 713
Cdd:cd17986    81 EVGYSIPQEDCTGPNTILRFCWDRLLLQEMTSTPLLGAWGVVVLDEAQERSVASDSLLGLLKDVRLQRPELRVVVVTSPA 160
                         170
                  ....*....|....*..
gi 334187649  714 NAQKFSNFFGSVPIFNI 730
Cdd:cd17986   161 LEPKLRAFWGNPPVVHV 177
HA2 smart00847
Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino ...
961-1043 1.06e-29

Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.


Pssm-ID: 214852 [Multi-domain]  Cd Length: 82  Bit Score: 113.13  E-value: 1.06e-29
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649    961 LGALNNVGGLTDLGWKMVEFPLDPPLAKMLLMGERLDCIDEVLTIVSMLSVPSvfFRPKERAEESDAAREKFFVPESDHL 1040
Cdd:smart00847    2 LGALDDDGRLTPLGRKMAELPLDPRLAKMLLAAAEFGCLDEILTIVAMLSVGD--PRPKEKREDADAARRRFADPESDHL 79

                    ...
gi 334187649   1041 TLL 1043
Cdd:smart00847   80 TLL 82
HA2 pfam04408
Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in ...
957-1042 1.51e-28

Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.


Pssm-ID: 461295 [Multi-domain]  Cd Length: 104  Bit Score: 110.79  E-value: 1.51e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   957 QLWVLGALNNVGGLTDLGWKMVEFPLDPPLAKMLLMGERLDCIDEVLTIVSMLSVPSVFFRP---KERAEESDAAREKFF 1033
Cdd:pfam04408    4 LLYYLGALDEDGELTPLGRKMAELPLDPRLAKMLLAAAELGCLDEVLTIVAALSVRDPFVQPnflDPRSAAKAARRRRRA 83
                           90       100
                   ....*....|....*....|.
gi 334187649  1034 ------------VPESDHLTL 1042
Cdd:pfam04408   84 adekarakfarlDLEGDHLTL 104
DEXDc smart00487
DEAD-like helicases superfamily;
553-739 1.34e-27

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 111.43  E-value: 1.34e-27
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649    553 EQRQYLPIFSVRDELLQVIREN-QVIVVVGETGSGKTTQLTQYLHEDGYTINGI-VGCTQPRRVAAMSVAKRVSEEMETE 630
Cdd:smart00487    2 EKFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKRGKGGrVLVLVPTRELAEQWAEELKKLGPSL 81
                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649    631 LGDKIGY------AIRFEDVTGPNTVIKYMTDGVLLRETLKDS-DLDKYRVVVMDEAHERS--LNTDVLFGILKKVvarR 701
Cdd:smart00487   82 GLKVVGLyggdskREQLRKLESGKTDILVTTPGRLLDLLENDKlSLSNVDLVILDEAHRLLdgGFGDQLEKLLKLL---P 158
                           170       180       190       200
                    ....*....|....*....|....*....|....*....|
gi 334187649    702 RDFKLIVTSATL--NAQKFSNFFGSVPIFNIPGRTFPVNI 739
Cdd:smart00487  159 KNVQLLLLSATPpeEIENLLELFLNDPVFIDVGFTPLEPI 198
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
1100-1177 1.66e-19

Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus of the DEAD-box helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. There do seem to be a couple of instances where it occurs by itself -. The structure PDB:3i4u adopts an OB-fold. helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. This C-terminal domain of the yeast helicase contains an oligonucleotide/oligosaccharide-binding (OB)-fold which seems to be placed at the entrance of the putative nucleic acid cavity. It also constitutes the binding site for the G-patch-containing domain of Pfa1p. When found on DEAH/RHA helicases, this domain is central to the regulation of the helicase activity through its binding of both RNA and G-patch domain proteins.


Pssm-ID: 400182 [Multi-domain]  Cd Length: 82  Bit Score: 83.84  E-value: 1.66e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  1100 VRKAICSAYFHNSARLKGVG-EYVNCRTGMPCHLHPSSALY-GLGYTPDYVVYHELILTTKEYMQCATSVEPHWLAELGP 1177
Cdd:pfam07717    1 LRAALAAGLYPNVARRDPKGkGYTTLSDNQRVFIHPSSVLFnEKTFPPEWVVYQELVETTKVYIRTVTAISPEWLLLFAP 80
PHA02653 PHA02653
RNA helicase NPH-II; Provisional
574-907 4.77e-16

RNA helicase NPH-II; Provisional


Pssm-ID: 177443 [Multi-domain]  Cd Length: 675  Bit Score: 83.49  E-value: 4.77e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  574 NQVIVVVGETGSGKTTQLTQ------YLHeDGY-TINGIVGCTQPR-------RVAamsVAKRVSEEMETELGdkigyai 639
Cdd:PHA02653  179 RKPVVLTGGTGVGKTSQVPKlllwfnYLF-GGFdNLDKIDPNFIERpivlslpRVA---LVRLHSITLLKSLG------- 247
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  640 rFEDVTGPNTVIKY--MTD----------GVLL---RETLkdSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRRDf 704
Cdd:PHA02653  248 -FDEIDGSPISLKYgsIPDelintnpkpyGLVFsthKLTL--NKLFDYGTVIIDEVHEHDQIGDIIIAVARKHIDKIRS- 323
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  705 kLIVTSATL--NAQKFSNFFGSVPIFNIPGRT-FPVNILYSKTPCE-----DYVEAAVKQAMTI--HITSPPG-DILIFM 773
Cdd:PHA02653  324 -LFLMTATLedDRDRIKEFFPNPAFVHIPGGTlFPISEVYVKNKYNpknkrAYIEEEKKNIVTAlkKYTPPKGsSGIVFV 402
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  774 tgqdEIEAACFSLKERMEQlvssssrEITNLLILPIYSQLP--ADLQAKIFQKPedgaRKCI-VATNIAETSLTVDGIYY 850
Cdd:PHA02653  403 ----ASVSQCEEYKKYLEK-------RLPIYDFYIIHGKVPniDEILEKVYSSK----NPSIiISTPYLESSVTIRNATH 467
                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 334187649  851 VIDTGygkmKVFNPRMgMDALQVFpISRAASDQRAGRAGRTGPGTCYRLYTeSAYLN 907
Cdd:PHA02653  468 VYDTG----RVYVPEP-FGGKEMF-ISKSMRTQRKGRVGRVSPGTYVYFYD-LDLLK 517
HELICc smart00490
helicase superfamily c-terminal domain;
806-892 2.67e-12

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 63.38  E-value: 2.67e-12
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649    806 ILPIYSQLPADLQAKIFQKPEDGARKCIVATNIAETSLTVDGIYYVIDTGygkmkvfnprmgmdalqvFPISRAASDQRA 885
Cdd:smart00490   14 VARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYD------------------LPWSPASYIQRI 75

                    ....*..
gi 334187649    886 GRAGRTG 892
Cdd:smart00490   76 GRAGRAG 82
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
760-892 3.69e-10

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: 58.38  E-value: 3.69e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   760 IHITSPPGDILIFMTGQDEIEAACFSLKErmeqlvssssreitNLLILPIYSQLPADLQAKIFQKPEDGARKCIVATNIA 839
Cdd:pfam00271    9 LLKKERGGKVLIFSQTKKTLEAELLLEKE--------------GIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVA 74
                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|...
gi 334187649   840 ETSLTVDGIYYVIDTGygkmkvfnprmgmdalqvFPISRAASDQRAGRAGRTG 892
Cdd:pfam00271   75 ERGLDLPDVDLVINYD------------------LPWNPASYIQRIGRAGRAG 109
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
568-714 4.37e-08

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: 54.17  E-value: 4.37e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   568 LQVIRENQVIVVVGETGSGKTT--QLT--QYLHEDGYTINGIVgcTQPRRVAA---MSVAKRVSEEMETELGDKIG---Y 637
Cdd:pfam00270    8 IPAILEGRDVLVQAPTGSGKTLafLLPalEALDKLDNGPQALV--LAPTRELAeqiYEELKKLGKGLGLKVASLLGgdsR 85
                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334187649   638 AIRFEDVTGPNtvIKYMTDGVLLRETLKDSDLDKYRVVVMDEAHERSlntDVLFG-ILKKVVAR-RRDFKLIVTSATLN 714
Cdd:pfam00270   86 KEQLEKLKGPD--ILVGTPGRLLDLLQERKLLKNLKLLVLDEAHRLL---DMGFGpDLEEILRRlPKKRQILLLSATLP 159
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
578-712 6.35e-06

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: 47.40  E-value: 6.35e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  578 VVVGETGSGKTTQLTQYLHEDGYTINGIVGCTQPRRVAAMSVAKRVSEEMEteLGDKIGYAIRFEDV------TGPNTVI 651
Cdd:cd00046     5 LITAPTGSGKTLAALLAALLLLLKKGKKVLVLVPTKALALQTAERLRELFG--PGIRVAVLVGGSSAeereknKLGDADI 82
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 334187649  652 KYMTDGVLLR--ETLKDSDLDKYRVVVMDEAHERSLNTDVLFGILKKVVARRR-DFKLIVTSAT 712
Cdd:cd00046    83 IIATPDMLLNllLREDRLFLKDLKLIIVDEAHALLIDSRGALILDLAVRKAGLkNAQVILLSAT 146
DEXHc_viral_Ns3 cd17931
DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional ...
575-681 4.82e-05

DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional protein found in pestiviruses that contains an N-terminal protease and a C-terminal helicase. The N-terminal domain is a chymotrypsin-like serine protease, which is responsible for most of the maturation cleavages of the polyprotein precursor in the cytosolic side of the endoplasmic reticulum membrane. The C-terminal domain, about two-thirds of NS3, is a helicase belonging to superfamily 2 (SF2) thought to be important for unwinding highly structured regions of the RNA genome during replication. NS3 plays an essential role in viral polyprotein processing and genome replication. NS3 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: 350689 [Multi-domain]  Cd Length: 151  Bit Score: 44.85  E-value: 4.82e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  575 QVIVVVGETGSGKTTQLTQYLHEDGYTINGIVGCTQPRRVAAMSVAKRVSeemetelGDKIGY---AIRFEDvtGPNTVI 651
Cdd:cd17931     2 QLTVLDLHPGAGKTTRVLPQIIREAIKKRLRTLVLAPTRVVAAEMYEALR-------GLPIRYrtgAVKEEH--GGNEIV 72
                          90       100       110
                  ....*....|....*....|....*....|
gi 334187649  652 KYMTDGVLLRETLKDSDLDKYRVVVMDEAH 681
Cdd:cd17931    73 DYMCHGTFTCRLLSPKRVPNYNLIIMDEAH 102
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
564-731 6.72e-04

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: 41.86  E-value: 6.72e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  564 RDELLQVIRENQVIVVVGETGSGKTTqLTQYLhedgyTINGIvgCTQPRRVAAMSVAKRVSEEMETELGDKIG-YAIRFE 642
Cdd:cd17921     7 REALRALYLSGDSVLVSAPTSSGKTL-IAELA-----ILRAL--ATSGGKAVYIAPTRALVNQKEADLRERFGpLGKNVG 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  643 DVTG---------PNTVIKYMT----DGVLLRetLKDSDLDKYRVVVMDEAH-----ERSlntDVLFGILKKVVARRRDF 704
Cdd:cd17921    79 LLTGdpsvnklllAEADILVATpeklDLLLRN--GGERLIQDVRLVVVDEAHligdgERG---VVLELLLSRLLRINKNA 153
                         170       180
                  ....*....|....*....|....*...
gi 334187649  705 KLIVTSATL-NAQKFSNFFGSVPIFNIP 731
Cdd:cd17921   154 RFVGLSATLpNAEDLAEWLGVEDLIRFD 181
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
155-226 8.78e-04

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 43.34  E-value: 8.78e-04
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 334187649   155 ETPRSRQRNTYDEMDHYRRRESYRQSDRDYHGEKRRRYNSD-----WRTPGRSDWDDGQDEWERSPHGDRGSSYSRR 226
Cdd:TIGR01642   10 EKSRGRDRDRSSERPRRRSRDRSRFRDRHRRSRERSYREDSrprdrRRYDSRSPRSLRYSSVRRSRDRPRRRSRSVR 86
GPN1 cd17870
GPN-loop GTPase 1; GPN-loop GTPase 1 (GPN1, also kown as MBD2-interacting protein or MBDin, ...
576-603 3.39e-03

GPN-loop GTPase 1; GPN-loop GTPase 1 (GPN1, also kown as MBD2-interacting protein or MBDin, RNAPII-associated protein 4, and XPA-binding protein 1) is a GTPase is required for nuclear targeting of RNA polymerase II. It forms heterodimers with GPN3.


Pssm-ID: 349779 [Multi-domain]  Cd Length: 241  Bit Score: 40.63  E-value: 3.39e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 334187649  576 VIVVVGETGSGKTT---QLTQYLHE---DGYTIN 603
Cdd:cd17870     2 VIIVVGMAGSGKTTfvqRLNAYLHDnkkPPYVIN 35
AAA_22 pfam13401
AAA domain;
575-681 6.50e-03

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 38.09  E-value: 6.50e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649   575 QVIVVVGETGSGKTTQLTQYLHEDgytingivgCTQPRRVAAMSVA-----KRVSEEMETELGDKIGYAIRFEDVTGpnt 649
Cdd:pfam13401    6 GILVLTGESGTGKTTLLRRLLEQL---------PEVRDSVVFVDLPsgtspKDLLRALLRALGLPLSGRLSKEELLA--- 73
                           90       100       110
                   ....*....|....*....|....*....|..
gi 334187649   650 vikymtdgvLLRETLKdsDLDKYRVVVMDEAH 681
Cdd:pfam13401   74 ---------ALQQLLL--ALAVAVVLIIDEAQ 94
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
833-900 8.25e-03

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: 36.53  E-value: 8.25e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187649  833 IVATNIAETSLTVDGIYYVIDTGYgkmkvfnprmgmdalqvfPISRAASDQRAGRAGRTG--PGTCYRLY 900
Cdd:cd18785    26 LVATNVLGEGIDVPSLDTVIFFDP------------------PSSAASYIQRVGRAGRGGkdEGEVILFV 77
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

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