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Conserved domains on  [gi|157786634|ref|NP_001099272|]
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ATP-dependent RNA helicase DHX33 [Rattus norvegicus]

Protein Classification

ATP-dependent RNA helicase( domain architecture ID 13388279)

DEAD/DEAH box containing ATP-dependent RNA helicase catalyzes the unwinding of RNA, similar to DEAH box protein 34 (DHX34) that is required for nonsense-mediated decay (NMD) degradation of mRNA transcripts containing premature stop codons

CATH:  3.40.50.300
EC:  3.6.4.13
Gene Ontology:  GO:0005524|GO:0003724|GO:0003676|GO:0016887|GO:0003723
PubMed:  34680866|19747077|22922795|20206133|21779027|20225155

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];
64-534 3.88e-160

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: 482.66  E-value: 3.88e-160
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  64 SLPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGKLVG 143
Cdd:COG1643    9 DLPVSAVLPELLAALRAHQVVVLAAPPGAGKTTQLPLALLELGWGAGGRIGMLEPRRLAARAAAERMAEELGEPVGETVG 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 144 YTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklPLKVIVMSA 223
Cdd:COG1643   89 YRVRFEDKVSAATRIEVVTEGILLRELQRDPELEGVDTVIFDEFHERSLNADLLLALLLDLQPALRP----DLKLLVMSA 164

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 224 TMDVDLFSQYFNGAPVLYLEGRQHPIQIFYT--KQPQQDYLHAALVSVFQIHQEAPssQDILVFLTGQEEIEamsKTCRD 301
Cdd:COG1643  165 TLDAERFARLLGDAPVIESSGRTYPVEVRYRplPADERDLEDAVADAVREALAEEP--GDILVFLPGEREIR---RTAEA 239

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 302 IAKHLPDGCpsmLVLPLYASLPYSQQLRVFQGAPKGYRKVIISTNIAETSITITGIKYVVDTGMVKAKKYNPDSGLEVLA 381
Cdd:COG1643  240 LRGRLPPDT---EILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRYVIDSGLARIPRYDPRSGVTRLP 316

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 382 VQRVSKTQAWQRTGRAGREDSGICYRLYTEDEFDKFEKMAAPEIQRCNLASVMLQLLAMKVPNVLTFDFMSRPSPDHIEA 461
Cdd:COG1643  317 TERISQASANQRAGRAGRLAPGICYRLWSEEDFARRPAFTDPEILRADLASLILELAAWGLGDPEDLPFLDPPPARAIAD 396

                        410       420       430       440       450       460       470
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 157786634 462 AIAQLDLLGALehkDDQLALTPIGRKMAAFPLEPKFAKTILLSSKFHCTEEILTIVSLLSVDsvlynPPARRD 534
Cdd:COG1643  397 ARALLQELGAL---DADGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILAALLSER-----DPRRGA 461
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 611-688 3.85e-16

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: 73.83  E-value: 3.85e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  611 VRRCLAHSLFMSTAELQPDG-TYATTDTHQPVAIHPSSVLFHC---KPACVVYTSLLYTNKCYMRDLCVVDAEWLYEAAP 686
Cdd:pfam07717   1 LRAALAAGLYPNVARRDPKGkGYTTLSDNQRVFIHPSSVLFNEktfPPEWVVYQELVETTKVYIRTVTAISPEWLLLFAP 80


                  ..
gi 157786634  687 DY 688
Cdd:pfam07717  81 HI 82
 
Name Accession Description Interval E-value
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
64-534 3.88e-160

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


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 482.66  E-value: 3.88e-160
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  64 SLPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGKLVG 143
Cdd:COG1643    9 DLPVSAVLPELLAALRAHQVVVLAAPPGAGKTTQLPLALLELGWGAGGRIGMLEPRRLAARAAAERMAEELGEPVGETVG 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 144 YTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklPLKVIVMSA 223
Cdd:COG1643   89 YRVRFEDKVSAATRIEVVTEGILLRELQRDPELEGVDTVIFDEFHERSLNADLLLALLLDLQPALRP----DLKLLVMSA 164

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 224 TMDVDLFSQYFNGAPVLYLEGRQHPIQIFYT--KQPQQDYLHAALVSVFQIHQEAPssQDILVFLTGQEEIEamsKTCRD 301
Cdd:COG1643  165 TLDAERFARLLGDAPVIESSGRTYPVEVRYRplPADERDLEDAVADAVREALAEEP--GDILVFLPGEREIR---RTAEA 239

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 302 IAKHLPDGCpsmLVLPLYASLPYSQQLRVFQGAPKGYRKVIISTNIAETSITITGIKYVVDTGMVKAKKYNPDSGLEVLA 381
Cdd:COG1643  240 LRGRLPPDT---EILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRYVIDSGLARIPRYDPRSGVTRLP 316

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 382 VQRVSKTQAWQRTGRAGREDSGICYRLYTEDEFDKFEKMAAPEIQRCNLASVMLQLLAMKVPNVLTFDFMSRPSPDHIEA 461
Cdd:COG1643  317 TERISQASANQRAGRAGRLAPGICYRLWSEEDFARRPAFTDPEILRADLASLILELAAWGLGDPEDLPFLDPPPARAIAD 396

                        410       420       430       440       450       460       470
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 157786634 462 AIAQLDLLGALehkDDQLALTPIGRKMAAFPLEPKFAKTILLSSKFHCTEEILTIVSLLSVDsvlynPPARRD 534
Cdd:COG1643  397 ARALLQELGAL---DADGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILAALLSER-----DPRRGA 461
DEAH_box_HrpA TIGR01967
RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ...
 64-686 1.56e-137

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: 435.35  E-value: 1.56e-137
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634    64 SLPIFRARGQLLAQLRnlDNAVLI--GETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGKL 141
Cdd:TIGR01967   65 NLPVSAKREDIAEAIA--ENQVVIiaGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGTPLGEK 142

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   142 VGYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKELgklplKVIVM 221
Cdd:TIGR01967  143 VGYKVRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDL-----KIIIT 217

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   222 SATMDVDLFSQYFNGAPVLYLEGRQHPIQIFY------TKQPQQDYLHAALVSVFQIHQEAPSsqDILVFLTGQEEIEam 295
Cdd:TIGR01967  218 SATIDPERFSRHFNNAPIIEVSGRTYPVEVRYrplveeQEDDDLDQLEAILDAVDELFAEGPG--DILIFLPGEREIR-- 293

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   296 sKTCRDIAKHLPDGCPsmlVLPLYASLPYSQQLRVFQgaPKGYRKVIISTNIAETSITITGIKYVVDTGMVKAKKYNPDS 375
Cdd:TIGR01967  294 -DAAEILRKRNLRHTE---ILPLYARLSNKEQQRVFQ--PHSGRRIVLATNVAETSLTVPGIHYVIDTGTARISRYSYRT 367

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   376 GLEVLAVQRVSKTQAWQRTGRAGREDSGICYRLYTEDEFDKFEKMAAPEIQRCNLASVMLQLLAMKVPNVLTFDFMSRPS 455
Cdd:TIGR01967  368 KVQRLPIEPISQASANQRKGRCGRVAPGICIRLYSEEDFNSRPEFTDPEILRTNLASVILQMLALRLGDIAAFPFIEAPD 447

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   456 PDHIEAAIAQLDLLGALEHKDDQLALTPIGRKMAAFPLEPKFAKTILLSSKFHCTEEILTIVSLLSVDSVLYNPPARRDE 535
Cdd:TIGR01967  448 PRAIRDGFRLLEELGALDDDEAEPQLTPIGRQLAQLPVDPRLARMLLEAHRLGCLQEVLIIASALSIQDPRERPMEKQQA 527

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   536 VQSVRKKFISSEGDHITLLNIYRTF----KNIGGN--KDWCKENFVNSKNMLLVAEVRAQLRDICLKMSMPIMSSRGDME 609
Cdd:TIGR01967  528 ADQAHARFKDPRSDFLSRVNLWRHIeeqrQALSANqfRNACRKQYLNYLRVREWQDIYRQLTQVVKELGLKLNEEPADYD 607

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   610 SVRRCLAHSLF----MSTAELQPDGTYATTdthqpVAIHPSSVLFHCKPACVVYTSLLYTNKCYMRDLCVVDAEWLYEAA 685
Cdd:TIGR01967  608 AIHKALLSGLLsqigMKDEKHEYDGARGRK-----FHIFPGSPLFKKPPKWVMAAELVETSKLYARLVAKIEPEWVEPVA 682


                   .
gi 157786634   686 P 686
Cdd:TIGR01967  683 G 683
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
 64-681 1.26e-129

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 414.46  E-value: 1.26e-129
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   64 SLPIFRARGQLLAQLRnlDNAVLI--GETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGKL 141
Cdd:PRK11131   72 NLPVSQKKQDILEAIR--DHQVVIvaGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELETELGGC 149

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  142 VGYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklpLKVIVM 221
Cdd:PRK11131  150 VGYKVRFNDQVSDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFILGYLKELLPRRPD-----LKVIIT 224

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  222 SATMDVDLFSQYFNGAPVLYLEGRQHPIQIFY------TKQPQQDYLHAALVSVFQIHQEAPSsqDILVFLTGQEEIeam 295
Cdd:PRK11131  225 SATIDPERFSRHFNNAPIIEVSGRTYPVEVRYrpiveeADDTERDQLQAIFDAVDELGREGPG--DILIFMSGEREI--- 299

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  296 sktcRDIAKHLPD-GCPSMLVLPLYASLPYSQQLRVFQgaPKGYRKVIISTNIAETSITITGIKYVVDTGMVKAKKYNPD 374
Cdd:PRK11131  300 ----RDTADALNKlNLRHTEILPLYARLSNSEQNRVFQ--SHSGRRIVLATNVAETSLTVPGIKYVIDPGTARISRYSYR 373

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  375 SGLEVLAVQRVSKTQAWQRTGRAGREDSGICYRLYTEDEFDKFEKMAAPEIQRCNLASVMLQLLAMKVPNVLTFDFMSRP 454
Cdd:PRK11131  374 TKVQRLPIEPISQASANQRKGRCGRVSEGICIRLYSEDDFLSRPEFTDPEILRTNLASVILQMTALGLGDIAAFPFVEAP 453

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  455 SPDHIEAAIAQLDLLGAL--EHKDDQLALTPIGRKMAAFPLEPKFAKTILLSSKFHCTEEILTIVSLLSVDSVLYNPPAR 532
Cdd:PRK11131  454 DKRNIQDGVRLLEELGAIttDEQASAYKLTPLGRQLAQLPVDPRLARMVLEAQKHGCVREVMIITSALSIQDPRERPMDK 533

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  533 RDEVQSVRKKFISSEGDHITLLNIYRTF----KNIGGN--KDWCKENFVnskNMLLVAE---VRAQLRDICLKMSMPIMS 603
Cdd:PRK11131  534 QQASDEKHRRFADKESDFLAFVNLWNYLqeqqKALSSNqfRRLCRTDYL---NYLRVREwqdIYTQLRQVVKELGIPVNS 610

                         570       580       590       600       610       620       630
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 157786634  604 SRGDMESVRRCLAHSLFMSTAELQPDGTYATTDTHQPVAIHPSSVLFHCKPACVVYTSLLYTNKCYMRDLCVVDAEWL 681
Cdd:PRK11131  611 EPAEYREIHTALLTGLLSHIGMKDAEKQEYTGARNARFSIFPGSGLFKKPPKWVMVAELVETSRLWGRIAARIEPEWI 688
DEXHc_DHX33 cd17978
DEXH-box helicase domain of DEAH-box helicase 33; DEAH-box helicase 33 (DHX33) stimulates RNA ...
 65-242 1.87e-118

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: 351.66  E-value: 1.87e-118
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGKLVGY 144
Cdd:cd17978    1 LPIYSARKRLLEELRKHDTVIIIGETGSGKTTQIPQYLYEAGFARGGMIGITQPRRVAAVSVAKRVAEEMGVELGQLVGY 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 145 TVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKELGKLPLKVIVMSAT 224
Cdd:cd17978   81 SVRFDDVTSEETRIKYMTDGMLLREAIGDPLLSKYSVIILDEAHERTVHTDVLFGLVKSAQRRRKEQKLSPLKVIIMSAT 160

                        170
                 ....*....|....*...
gi 157786634 225 MDVDLFSQYFNGAPVLYL 242
Cdd:cd17978  161 LDADLFSEYFNGAPVLYI 178
HA2 pfam04408
Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in ...
 462-553 7.08e-24

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: 96.54  E-value: 7.08e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  462 AIAQLDLLGALehkDDQLALTPIGRKMAAFPLEPKFAKTILLSSKFHCTEEILTIVSLLSVDSVLYNPP----------- 530
Cdd:pfam04408   1 ALELLYYLGAL---DEDGELTPLGRKMAELPLDPRLAKMLLAAAELGCLDEVLTIVAALSVRDPFVQPNfldprsaakaa 77

                          90       100
                  ....*....|....*....|....*..
gi 157786634  531 --ARRDEVQSVRKKFISS--EGDHITL 553
Cdd:pfam04408  78 rrRRRAADEKARAKFARLdlEGDHLTL 104
HA2 smart00847
Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino ...
 469-554 1.00e-23

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: 95.41  E-value: 1.00e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   469 LGALehkDDQLALTPIGRKMAAFPLEPKFAKTILLSSKFHCTEEILTIVSLLSVDSvlYNPPARRDEVQSVRKKFISSEG 548
Cdd:smart00847   2 LGAL---DDDGRLTPLGRKMAELPLDPRLAKMLLAAAEFGCLDEILTIVAMLSVGD--PRPKEKREDADAARRRFADPES 76


                   ....*.
gi 157786634   549 DHITLL 554
Cdd:smart00847  77 DHLTLL 82
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 611-688 3.85e-16

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: 73.83  E-value: 3.85e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  611 VRRCLAHSLFMSTAELQPDG-TYATTDTHQPVAIHPSSVLFHC---KPACVVYTSLLYTNKCYMRDLCVVDAEWLYEAAP 686
Cdd:pfam07717   1 LRAALAAGLYPNVARRDPKGkGYTTLSDNQRVFIHPSSVLFNEktfPPEWVVYQELVETTKVYIRTVTAISPEWLLLFAP 80


                  ..
gi 157786634  687 DY 688
Cdd:pfam07717  81 HI 82
 
Name Accession Description Interval E-value
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
64-534 3.88e-160

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


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 482.66  E-value: 3.88e-160
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  64 SLPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGKLVG 143
Cdd:COG1643    9 DLPVSAVLPELLAALRAHQVVVLAAPPGAGKTTQLPLALLELGWGAGGRIGMLEPRRLAARAAAERMAEELGEPVGETVG 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 144 YTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklPLKVIVMSA 223
Cdd:COG1643   89 YRVRFEDKVSAATRIEVVTEGILLRELQRDPELEGVDTVIFDEFHERSLNADLLLALLLDLQPALRP----DLKLLVMSA 164

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 224 TMDVDLFSQYFNGAPVLYLEGRQHPIQIFYT--KQPQQDYLHAALVSVFQIHQEAPssQDILVFLTGQEEIEamsKTCRD 301
Cdd:COG1643  165 TLDAERFARLLGDAPVIESSGRTYPVEVRYRplPADERDLEDAVADAVREALAEEP--GDILVFLPGEREIR---RTAEA 239

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 302 IAKHLPDGCpsmLVLPLYASLPYSQQLRVFQGAPKGYRKVIISTNIAETSITITGIKYVVDTGMVKAKKYNPDSGLEVLA 381
Cdd:COG1643  240 LRGRLPPDT---EILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRYVIDSGLARIPRYDPRSGVTRLP 316

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 382 VQRVSKTQAWQRTGRAGREDSGICYRLYTEDEFDKFEKMAAPEIQRCNLASVMLQLLAMKVPNVLTFDFMSRPSPDHIEA 461
Cdd:COG1643  317 TERISQASANQRAGRAGRLAPGICYRLWSEEDFARRPAFTDPEILRADLASLILELAAWGLGDPEDLPFLDPPPARAIAD 396

                        410       420       430       440       450       460       470
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 157786634 462 AIAQLDLLGALehkDDQLALTPIGRKMAAFPLEPKFAKTILLSSKFHCTEEILTIVSLLSVDsvlynPPARRD 534
Cdd:COG1643  397 ARALLQELGAL---DADGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILAALLSER-----DPRRGA 461
DEAH_box_HrpA TIGR01967
RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ...
 64-686 1.56e-137

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: 435.35  E-value: 1.56e-137
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634    64 SLPIFRARGQLLAQLRnlDNAVLI--GETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGKL 141
Cdd:TIGR01967   65 NLPVSAKREDIAEAIA--ENQVVIiaGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELGTPLGEK 142

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   142 VGYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKELgklplKVIVM 221
Cdd:TIGR01967  143 VGYKVRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDL-----KIIIT 217

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   222 SATMDVDLFSQYFNGAPVLYLEGRQHPIQIFY------TKQPQQDYLHAALVSVFQIHQEAPSsqDILVFLTGQEEIEam 295
Cdd:TIGR01967  218 SATIDPERFSRHFNNAPIIEVSGRTYPVEVRYrplveeQEDDDLDQLEAILDAVDELFAEGPG--DILIFLPGEREIR-- 293

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   296 sKTCRDIAKHLPDGCPsmlVLPLYASLPYSQQLRVFQgaPKGYRKVIISTNIAETSITITGIKYVVDTGMVKAKKYNPDS 375
Cdd:TIGR01967  294 -DAAEILRKRNLRHTE---ILPLYARLSNKEQQRVFQ--PHSGRRIVLATNVAETSLTVPGIHYVIDTGTARISRYSYRT 367

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   376 GLEVLAVQRVSKTQAWQRTGRAGREDSGICYRLYTEDEFDKFEKMAAPEIQRCNLASVMLQLLAMKVPNVLTFDFMSRPS 455
Cdd:TIGR01967  368 KVQRLPIEPISQASANQRKGRCGRVAPGICIRLYSEEDFNSRPEFTDPEILRTNLASVILQMLALRLGDIAAFPFIEAPD 447

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   456 PDHIEAAIAQLDLLGALEHKDDQLALTPIGRKMAAFPLEPKFAKTILLSSKFHCTEEILTIVSLLSVDSVLYNPPARRDE 535
Cdd:TIGR01967  448 PRAIRDGFRLLEELGALDDDEAEPQLTPIGRQLAQLPVDPRLARMLLEAHRLGCLQEVLIIASALSIQDPRERPMEKQQA 527

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   536 VQSVRKKFISSEGDHITLLNIYRTF----KNIGGN--KDWCKENFVNSKNMLLVAEVRAQLRDICLKMSMPIMSSRGDME 609
Cdd:TIGR01967  528 ADQAHARFKDPRSDFLSRVNLWRHIeeqrQALSANqfRNACRKQYLNYLRVREWQDIYRQLTQVVKELGLKLNEEPADYD 607

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   610 SVRRCLAHSLF----MSTAELQPDGTYATTdthqpVAIHPSSVLFHCKPACVVYTSLLYTNKCYMRDLCVVDAEWLYEAA 685
Cdd:TIGR01967  608 AIHKALLSGLLsqigMKDEKHEYDGARGRK-----FHIFPGSPLFKKPPKWVMAAELVETSKLYARLVAKIEPEWVEPVA 682


                   .
gi 157786634   686 P 686
Cdd:TIGR01967  683 G 683
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
 64-681 1.26e-129

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 414.46  E-value: 1.26e-129
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   64 SLPIFRARGQLLAQLRnlDNAVLI--GETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGKL 141
Cdd:PRK11131   72 NLPVSQKKQDILEAIR--DHQVVIvaGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELETELGGC 149

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  142 VGYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklpLKVIVM 221
Cdd:PRK11131  150 VGYKVRFNDQVSDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFILGYLKELLPRRPD-----LKVIIT 224

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  222 SATMDVDLFSQYFNGAPVLYLEGRQHPIQIFY------TKQPQQDYLHAALVSVFQIHQEAPSsqDILVFLTGQEEIeam 295
Cdd:PRK11131  225 SATIDPERFSRHFNNAPIIEVSGRTYPVEVRYrpiveeADDTERDQLQAIFDAVDELGREGPG--DILIFMSGEREI--- 299

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  296 sktcRDIAKHLPD-GCPSMLVLPLYASLPYSQQLRVFQgaPKGYRKVIISTNIAETSITITGIKYVVDTGMVKAKKYNPD 374
Cdd:PRK11131  300 ----RDTADALNKlNLRHTEILPLYARLSNSEQNRVFQ--SHSGRRIVLATNVAETSLTVPGIKYVIDPGTARISRYSYR 373

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  375 SGLEVLAVQRVSKTQAWQRTGRAGREDSGICYRLYTEDEFDKFEKMAAPEIQRCNLASVMLQLLAMKVPNVLTFDFMSRP 454
Cdd:PRK11131  374 TKVQRLPIEPISQASANQRKGRCGRVSEGICIRLYSEDDFLSRPEFTDPEILRTNLASVILQMTALGLGDIAAFPFVEAP 453

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  455 SPDHIEAAIAQLDLLGAL--EHKDDQLALTPIGRKMAAFPLEPKFAKTILLSSKFHCTEEILTIVSLLSVDSVLYNPPAR 532
Cdd:PRK11131  454 DKRNIQDGVRLLEELGAIttDEQASAYKLTPLGRQLAQLPVDPRLARMVLEAQKHGCVREVMIITSALSIQDPRERPMDK 533

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  533 RDEVQSVRKKFISSEGDHITLLNIYRTF----KNIGGN--KDWCKENFVnskNMLLVAE---VRAQLRDICLKMSMPIMS 603
Cdd:PRK11131  534 QQASDEKHRRFADKESDFLAFVNLWNYLqeqqKALSSNqfRRLCRTDYL---NYLRVREwqdIYTQLRQVVKELGIPVNS 610

                         570       580       590       600       610       620       630
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 157786634  604 SRGDMESVRRCLAHSLFMSTAELQPDGTYATTDTHQPVAIHPSSVLFHCKPACVVYTSLLYTNKCYMRDLCVVDAEWL 681
Cdd:PRK11131  611 EPAEYREIHTALLTGLLSHIGMKDAEKQEYTGARNARFSIFPGSGLFKKPPKWVMVAELVETSRLWGRIAARIEPEWI 688
DEXHc_DHX33 cd17978
DEXH-box helicase domain of DEAH-box helicase 33; DEAH-box helicase 33 (DHX33) stimulates RNA ...
 65-242 1.87e-118

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: 351.66  E-value: 1.87e-118
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGKLVGY 144
Cdd:cd17978    1 LPIYSARKRLLEELRKHDTVIIIGETGSGKTTQIPQYLYEAGFARGGMIGITQPRRVAAVSVAKRVAEEMGVELGQLVGY 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 145 TVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKELGKLPLKVIVMSAT 224
Cdd:cd17978   81 SVRFDDVTSEETRIKYMTDGMLLREAIGDPLLSKYSVIILDEAHERTVHTDVLFGLVKSAQRRRKEQKLSPLKVIIMSAT 160

                        170
                 ....*....|....*...
gi 157786634 225 MDVDLFSQYFNGAPVLYL 242
Cdd:cd17978  161 LDADLFSEYFNGAPVLYI 178
DEAH_box_HrpB TIGR01970
ATP-dependent helicase HrpB; This model represents HrpB, one of two related but ...
 65-502 8.62e-89

ATP-dependent helicase HrpB; This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 273901 [Multi-domain]  Cd Length: 819  Bit Score: 295.14  E-value: 8.62e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIP-QYLYEGGISRQgiIAVTQPRRVAAISLATRVSDEKRTELGKLVG 143
Cdd:TIGR01970   1 LPIHAVLPALRDALAAHPQVVLEAPPGAGKSTAVPlALLDAPGIGGK--IIMLEPRRLAARSAAQRLASQLGEAVGQTVG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  144 YTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklPLKVIVMSA 223
Cdd:TIGR01970  79 YRVRGENKVSRRTRLEVVTEGILTRMIQDDPELDGVGALIFDEFHERSLDADLGLALALDVQSSLRE----DLKILAMSA 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  224 TMDVDLFSQYFNGAPVLYLEGRQHPIQIFYTKQPQQDYLHAAlVSVFQIHQEAPSSQDILVFLTGQEEIeamsktcRDIA 303
Cdd:TIGR01970 155 TLDGERLSSLLPDAPVVESEGRSFPVEIRYLPLRGDQRLEDA-VSRAVEHALASETGSILVFLPGQAEI-------RRVQ 226

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  304 KHLPDGC-PSMLVLPLYASLPYSQQLRVFQGAPKGYRKVIISTNIAETSITITGIKYVVDTGMVKAKKYNPDSGLEVLAV 382
Cdd:TIGR01970 227 EQLAERLdSDVLICPLYGELSLAAQDRAIKPDPQGRRKVVLATNIAETSLTIEGIRVVIDSGLARVARFDPKTGITRLET 306

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  383 QRVSKTQAWQRTGRAGREDSGICYRLYTEDEFDKFEKMAAPEIQRCNLASVMLQLLA--MKVPNVLTfdFMSRPSPDHIE 460
Cdd:TIGR01970 307 VRISQASATQRAGRAGRLEPGVCYRLWSEEQHQRLPAQDEPEILQADLSGLALELAQwgAKDPSDLR--WLDAPPSVALA 384

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|..
gi 157786634  461 AAIAQLDLLGALehkDDQLALTPIGRKMAAFPLEPKFAKTIL 502
Cdd:TIGR01970 385 AARQLLQRLGAL---DAQGRLTAHGKAMAALGCHPRLAAMLL 423
DEXHc_RHA-like cd17917
DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) ...
 85-241 1.57e-84

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: 263.17  E-value: 1.57e-84
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  85 VLIGETGSGKTTQIPQYLYEGGISRQ--GIIAVTQPRRVAAISLATRVSDEKRTELGKLVGYTVRFEDVTSEDTRIKFLT 162
Cdd:cd17917    5 VIVGETGSGKTTQVPQFLLEDGLAKGgkGRIVCTQPRRIAAISVAERVAEERGEKLGEEVGYQIRFESKTSSKTRIKFCT 84

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 157786634 163 DGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklpLKVIVMSATMDVDLFSQYFNGAPVLY 241
Cdd:cd17917   85 DGILLRELLSDPLLSGYSHVILDEAHERSLDTDFLLGLLKDLLRKRPD-----LKVILMSATLDAEKFSSYFGGAPVIH 158
PRK11664 PRK11664
ATP-dependent RNA helicase HrpB; Provisional
 64-506 3.37e-81

ATP-dependent RNA helicase HrpB; Provisional


Pssm-ID: 236950 [Multi-domain]  Cd Length: 812  Bit Score: 274.49  E-value: 3.37e-81
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  64 SLPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIP-QYLYEGGISrqGIIAVTQPRRVAAISLATRVSDEKRTELGKLV 142
Cdd:PRK11664   3 SLPVAAVLPELLTALKTAPQVLLKAPTGAGKSTWLPlQLLQHGGIN--GKIIMLEPRRLAARNVAQRLAEQLGEKPGETV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 143 GYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklPLKVIVMS 222
Cdd:PRK11664  81 GYRMRAESKVGPNTRLEVVTEGILTRMIQRDPELSGVGLVILDEFHERSLQADLALALLLDVQQGLRD----DLKLLIMS 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 223 ATMDVDLFSQYFNGAPVLYLEGRQHPIQIFYTKQPQQDYLHAAL-VSVFQIHQEAPSSqdILVFLTGQEEIeamsktcRD 301
Cdd:PRK11664 157 ATLDNDRLQQLLPDAPVIVSEGRSFPVERRYQPLPAHQRFDEAVaRATAELLRQESGS--LLLFLPGVGEI-------QR 227

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 302 IAKHLPDGCPS-MLVLPLYASLPYSQQLRVFQGAPKGYRKVIISTNIAETSITITGIKYVVDTGMVKAKKYNPDSGLEVL 380
Cdd:PRK11664 228 VQEQLASRVASdVLLCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRLVVDSGLERVARFDPKTGLTRL 307

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 381 AVQRVSKTQAWQRTGRAGREDSGICYRLYTEDEFDKFEKMAAPEIQRCNLASVMLQLLAMKVPNVLTFDFMSRPSPDHIE 460
Cdd:PRK11664 308 VTQRISQASMTQRAGRAGRLEPGICLHLYSKEQAERAAAQSEPEILHSDLSGLLLELLQWGCHDPAQLSWLDQPPAAALA 387

                        410       420       430       440
                 ....*....|....*....|....*....|....*....|....*.
gi 157786634 461 AAIAQLDLLGALehkDDQLALTPIGRKMAAFPLEPKFAkTILLSSK 506
Cdd:PRK11664 388 AAKRLLQQLGAL---DGQGRLTARGRKMAALGNDPRLA-AMLVAAK 429
DEXHc_DHX8 cd17971
DEXH-box helicase domain of DEAH-box helicase 8; DEAH-box helicase 8 (DHX8 ,also known as ...
 61-239 1.21e-73

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: 235.45  E-value: 1.21e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  61 QRRSLPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGK 140
Cdd:cd17971    2 QRESLPIYKLKEQLIQAVHDNQILVVIGETGSGKTTQITQYLAEAGYTSRGKIGCTQPRRVAAMSVAKRVAEEFGCCLGQ 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 141 LVGYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklpLKVIV 220
Cdd:cd17971   82 EVGYTIRFEDCTSPETVIKYMTDGMLLRECLIDPDLSQYSVIMLDEAHERTIHTDVLFGLLKKTVQKRPD-----LKLIV 156

                        170
                 ....*....|....*....
gi 157786634 221 MSATMDVDLFSQYFNGAPV 239
Cdd:cd17971  157 TSATLDAVKFSQYFYEAPI 175
DEXHc_DHX15 cd17973
DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA ...
 54-240 1.37e-73

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: 235.77  E-value: 1.37e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  54 YREALElQRRSLPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGISRQG--IIAVTQPRRVAAISLATRVS 131
Cdd:cd17973    3 YFEILE-KRRELPVWEQKEDFLKLLKNNQILVLVGETGSGKTTQIPQFVLDDELPHQPkkLVACTQPRRVAAMSVAQRVA 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 132 DEKRTELGKLVGYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKEl 211
Cdd:cd17973   82 EEMDVKLGEEVGYSIRFEDCSSAKTILKYMTDGMLLREAMSDPLLSRYSVIILDEAHERTLATDILMGLLKEVVRRRPD- 160

                        170       180
                 ....*....|....*....|....*....
gi 157786634 212 gklpLKVIVMSATMDVDLFSQYFNGAPVL 240
Cdd:cd17973  161 ----LKLIVMSATLDAGKFQKYFDNAPLL 185
SF2_C_RHA cd18791
C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A ...
 247-409 5.21e-73

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: 233.58  E-value: 5.21e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 247 HPIQIFYTKQP-----------QQDYLHAALVSVFQIHQEAPSSqDILVFLTGQEEIEAMSKTCRDIAKHlpDGCPSMLV 315
Cdd:cd18791    1 FPVEVYYLEDIlellgissekeDPDYVDAAVRLILQIHRTEEPG-DILVFLPGQEEIERLCELLREELLS--PDLGKLLV 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 316 LPLYASLPYSQQLRVFQGAPKGYRKVIISTNIAETSITITGIKYVVDTGMVKAKKYNPDSGLEVLAVQRVSKTQAWQRTG 395
Cdd:cd18791   78 LPLHSSLPPEEQQRVFEPPPPGVRKVVLATNIAETSITIPGVVYVIDSGLVKEKVYDPRTGLSSLVTVWISKASAEQRAG 157

                        170
                 ....*....|....
gi 157786634 396 RAGREDSGICYRLY 409
Cdd:cd18791  158 RAGRTRPGKCYRLY 171
DEXHc_DHX38 cd17983
DEXH-box helicase domain of DEAH-box helicase 38; DEAH-box helicase 38 (DHX38, also known as ...
 65-239 1.20e-70

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: 227.35  E-value: 1.20e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRnlDNAVLI--GETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGKLV 142
Cdd:cd17983    1 LPIFAVRQELLNVIR--DNNVVIvvGETGSGKTTQLTQYLHEDGYTDYGMIGCTQPRRVAAMSVAKRVSEEMGVELGEEV 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 143 GYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklpLKVIVMS 222
Cdd:cd17983   79 GYAIRFEDCTSENTVIKYMTDGILLRESLRDPDLDKYSAIIMDEAHERSLNTDVLFGLLREVVARRRD-----LKLIVTS 153

                        170
                 ....*....|....*..
gi 157786634 223 ATMDVDLFSQYFNGAPV 239
Cdd:cd17983  154 ATMDADKFADFFGNVPI 170
DEXHc_DHX35 cd17980
DEXH-box helicase domain of DEAH-box helicase 35; DHX35 plays a role in colorectal cancers and ...
 65-235 3.91e-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: 221.19  E-value: 3.91e-68
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGISRQG-IIAVTQPRRVAAISLATRVSDEKRTELGKLVG 143
Cdd:cd17980    1 LPVFKLRNHILYLVENYQTIVIVGETGCGKSTQIPQYLAEAGWTAGGrVVGCTQPRRVAAVTVAGRVAEEMGAVLGHEVG 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 144 YTVRFEDVTSED-TRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklpLKVIVMS 222
Cdd:cd17980   81 YCIRFDDCTDPQaTRIKFLTDGMLVREMMLDPLLTKYSVIMLDEAHERTLYTDILIGLLKKIQKKRGD-----LRLIVAS 155

                        170
                 ....*....|...
gi 157786634 223 ATMDVDLFSQYFN 235
Cdd:cd17980  156 ATLDAEKFRDFFN 168
DEXHc_DHX16 cd17974
DEXH-box helicase domain of DEAH-box helicase 16; DEAH-box helicase 16 (DHX16) is probably ...
 65-242 1.81e-65

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: 213.90  E-value: 1.81e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGISRQGI-IAVTQPRRVAAISLATRVSDEKRTELGKLVG 143
Cdd:cd17974    1 LPVYPYRDDLLAAVKEHQVLIIVGETGSGKTTQIPQYLHEAGYTKGGGkIGCTQPRRVAAMSVAARVAEEMGVKLGNEVG 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 144 YTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklpLKVIVMSA 223
Cdd:cd17974   81 YSIRFEDCTSEKTVLKYMTDGMLLREFLTEPDLASYSVMIIDEAHERTLHTDILFGLVKDIARFRPD-----LKLLISSA 155

                        170
                 ....*....|....*....
gi 157786634 224 TMDVDLFSQYFNGAPVLYL 242
Cdd:cd17974  156 TMDAEKFSAFFDDAPIFRI 174
DEXHc_DHX40 cd17984
DEXH-box helicase domain of DEAH-box helicase 40; DEAH-box helicase 40 (DHX40) belongs to the ...
 65-242 3.08e-65

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: 213.56  E-value: 3.08e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRnlDNAVLI--GETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGKLV 142
Cdd:cd17984    1 LPIQKQRKKLVQAVR--DNSFLIvtGNTGSGKTTQLPKYLYEAGFSQHGMIGVTQPRRVAAISVAQRVAEEMKCTLGSKV 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 143 GYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKELGKLPLKVIVMS 222
Cdd:cd17984   79 GYQVRFDDCSSKETAIKYMTDGCLLRHILADPNLTKYSVIILDEAHERSLTTDILFGLLKKLFQEKSPNRKEHLKVVVMS 158

                        170       180
                 ....*....|....*....|
gi 157786634 223 ATMDVDLFSQYFNGAPVLYL 242
Cdd:cd17984  159 ATLELAKLSAFFGNCPVFDI 178
DEXHc_DHX37 cd17982
DEXH-box helicase domain of DEAH-box helicase 37; DHX37 plays a role in the development of the ...
 65-232 1.89e-62

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: 206.44  E-value: 1.89e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGIS-----RQGIIAVTQPRRVAAISLATRVSDEkRTELG 139
Cdd:cd17982    1 LPILAEEQEIMEAINENPVVIICGETGSGKTTQVPQFLYEAGFGspesdNPGMIGITQPRRVAAVSMAKRVAEE-LNVFG 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 140 KLVGYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKELGK-----L 214
Cdd:cd17982   80 KEVSYQIRYDSTVSENTKIKFMTDGVLLKEIQTDFLLRKYSVIIIDEAHERSVNTDILIGMLSRIVPLRAKLYLqdqtvK 159

                        170
                 ....*....|....*...
gi 157786634 215 PLKVIVMSATMDVDLFSQ 232
Cdd:cd17982  160 PLKLVIMSATLRVEDFTE 177
DEXHc_HrpA cd17989
DEXH-box helicase domain of ATP-dependent RNA helicase HrpA; HrpA is part of the HrpB-HrpA ...
 65-240 7.77e-57

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: 190.74  E-value: 7.77e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRnlDNAVLI--GETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGKLV 142
Cdd:cd17989    1 LPVSQKRDEIAKAIA--ENQVVIiaGETGSGKTTQLPKICLELGRGIRGLIGHTQPRRLAARSVAERIAEELKTELGGAV 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 143 GYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklpLKVIVMS 222
Cdd:cd17989   79 GYKVRFTDQTSDETCVKLMTDGILLAETQTDRYLRAYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPD-----LKVIITS 153

                        170
                 ....*....|....*...
gi 157786634 223 ATMDVDLFSQYFNGAPVL 240
Cdd:cd17989  154 ATIDAERFSRHFNNAPII 171
DEXHc_DHX34 cd17979
DEXH-box helicase domain of DEAH-box helicase 34; DEAH-box helicase 34 (DHX34) plays a role in ...
 65-240 4.12e-52

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: 178.02  E-value: 4.12e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGISRqgiIAVTQPRRVAAISLATRVSDEKRTELGKLVGY 144
Cdd:cd17979    1 LPIAQYREKIIELLKTHQVVIVAGDTGCGKSTQVPQYLLAAGFRH---IACTQPRRIACISLAKRVAFESLNQYGSKVAY 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 145 TVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklpLKVIVMSAT 224
Cdd:cd17979   78 QIRFERTRTLATKLLFLTEGLLLRQIQRDASLPQYNVLILDEVHERHLHGDFLLGVLRCLLRLRPD-----LKLILMSAT 152

                        170
                 ....*....|....*.
gi 157786634 225 MDVDLFSQYFNGAPVL 240
Cdd:cd17979  153 INIELFSGYFEGAPVV 168
DEXHc_DHX29 cd17975
DEXH-box helicase domain of DEAH-box helicase 29; DEAH-box helicase 29 (DHX29) is a part of ...
 65-240 2.68e-45

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: 159.70  E-value: 2.68e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYE-----GGISRQGIIAVTQPRRVAAISLATRVSDEKRTELG 139
Cdd:cd17975    1 LPVFKHRESILETLKRHRVVVVAGETGSGKSTQVPQFLLEdlllnGGTAQKCNIVCTQPRRISAMSLATRVCEELGCESG 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 140 -----KLVGYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgkl 214
Cdd:cd17975   81 pggknSLCGYQIRMESRTGEATRLLYCTTGVLLRKLQEDGLLSSISHIIVDEVHERSVQSDFLLIILKEILHKRSD---- 156

                        170       180
                 ....*....|....*....|....*.
gi 157786634 215 pLKVIVMSATMDVDLFSQYFNGAPVL 240
Cdd:cd17975  157 -LHLILMSATVDCEKFSSYFTHCPIL 181
DEXHc_DHX57 cd17985
DEXH-box helicase domain of DEAH-box helicase 57; DEAH-box helicase 57 (DHX57) belongs to the ...
 65-242 1.20e-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: 157.69  E-value: 1.20e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYL----YEGGISRQGIIAVTQPRRVAAISLATRVSDEKRTELGK 140
Cdd:cd17985    1 LPAWQERETILELLEKHQVLVISGMTGCGKTTQIPQFIldnsLQGPPLPVANIICTQPRRISAISVAERVAQERAERVGQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 141 LVGYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklpLKVIV 220
Cdd:cd17985   81 SVGYQIRLESVKSSATRLLYCTTGVLLRRLEGDPTLQGVTHVIVDEVHERTEESDFLLLVLKDLMVQRPD-----LKVIL 155

                        170       180
                 ....*....|....*....|..
gi 157786634 221 MSATMDVDLFSQYFNGAPVLYL 242
Cdd:cd17985  156 MSATLNAELFSDYFNSCPVIHI 177
DEXHc_YTHDC2 cd17987
DEXH-box helicase domain of YTH domain containing 2; YTH domain containing 2 (YTHDC2) ...
 65-242 8.28e-42

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: 149.98  E-value: 8.28e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYL----YEGGISRQgiIAVTQPRRVAAISLATRVSDEKRTELGK 140
Cdd:cd17987    1 LPVFEKQEQIVRIIKENKVVLIVGETGSGKTTQIPQFLlddcYANGIPCR--IFCTQPRRLAAIAVAERVAAERGEKIGQ 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 141 LVGYTVRFEDVTSEDTRIKFLTDGMLLREAIS-DSLLRKYSCVILDEAHERTIHTDVLFgvvktaQKRRKELGKLP-LKV 218
Cdd:cd17987   79 TVGYQIRLESRVSPKTLLTFCTNGVLLRTLMAgDSALSTVTHVIVDEVHERDRFSDFLL------TKLRDILQKHPnLKL 152

                        170       180
                 ....*....|....*....|....
gi 157786634 219 IVMSATMDVDLFSQYFNGAPVLYL 242
Cdd:cd17987  153 ILSSAALDVNLFIRYFGSCPVIYI 176
DEXHc_HrpB cd17990
DEXH-box helicase domain of ATP-dependent helicase HrpB; HrpB is part of the HrpB-HrpA ...
 65-240 9.36e-41

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: 146.71  E-value: 9.36e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIP-QYLYEGGISRQGIIaVTQPRRVAAISLATRVSDEKRTELGKLVG 143
Cdd:cd17990    1 LPIAAVLPALRAALDAGGQVVLEAPPGAGKTTRVPlALLAELWIAGGKII-VLEPRRVAARAAARRLATLLGEAPGETVG 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 144 YTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklPLKVIVMSA 223
Cdd:cd17990   80 YRVRGESRVGRRTRVEVVTEGVLLRRLQRDPELSGVGAVILDEFHERSLDADLALALLLEVQQLLRD----DLRLLAMSA 155

                        170
                 ....*....|....*..
gi 157786634 224 TMDVDLFSQYFNGAPVL 240
Cdd:cd17990  156 TLDGDGLAALLPEAPVV 172
DEXHc_DHX9 cd17972
DEXH-box helicase domain of DEAH-box helicase 9; DEAH-box helicase 9 (DHX9, also known as ...
 54-240 9.64e-40

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: 146.13  E-value: 9.64e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  54 YREALElQRRSLPIFRARGQLLAQLRNldNAVLI--GETGSGKTTQIPQYLYE----GGISRQGIIAVTQPRRVAAISLA 127
Cdd:cd17972   49 LQQILQ-ERELLPVKKFREEILEAISN--NPVVIirGATGCGKTTQVPQYILDdfiqNDRAAECNIVVTQPRRISAVSVA 125

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 128 TRVSDEKRTELGKLVGYTVRFEDVTSED-TRIKFLTDGMLLREAisDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQK 206
Cdd:cd17972  126 ERVAFERGEEVGKSCGYSVRFESVLPRPhASILFCTVGVLLRKL--EAGIRGISHVIVDEIHERDINTDFLLVVLRDVVQ 203

                        170       180       190
                 ....*....|....*....|....*....|....
gi 157786634 207 RRKElgklpLKVIVMSATMDVDLFSQYFNGAPVL 240
Cdd:cd17972  204 AYPD-----LRVILMSATIDTSMFCEYFFNCPVI 232
DEXHc_DHX36 cd17981
DEXH-box helicase domain of DEAH-box helicase 36; DEAH-box helicase 36 (DHX36, also known as ...
 65-242 1.88e-39

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: 143.44  E-value: 1.88e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGISR----QGIIAVTQPRRVAAISLATRVSDEkRTE--- 137
Cdd:cd17981    1 LPSYGMKQEIINMIDNNQVTVISGETGCGKTTQVTQFILDDAIERgkgsSCRIVCTQPRRISAISVAERVAAE-RAEscg 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 138 LGKLVGYTVRFED-VTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklpL 216
Cdd:cd17981   80 LGNSTGYQIRLESrKPRKQGSILYCTTGIVLQWLQSDPHLSNVSHLVLDEIHERNLQSDVLMGIVKDLLPFRSD-----L 154

                        170       180
                 ....*....|....*....|....*.
gi 157786634 217 KVIVMSATMDVDLFSQYFNGAPVLYL 242
Cdd:cd17981  155 KVILMSATLNAEKFSDYFNNCPMIHI 180
DEXHc_TDRD9 cd17988
DEXH-box helicase domain of tudor domain containing 9; Tudor domain containing 9 (TDRD9, also ...
 65-234 1.65e-38

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: 140.71  E-value: 1.65e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNldNAVLI--GETGSGKTTQIPQYLYEGGISRQGI--IAVTQPRRVAAISLATRVSDEKRTELGK 140
Cdd:cd17988    1 LPIYAKREEILSLIEA--NSVVIikGATGCGKTTQLPQFILDHYYKRGKYcnIVVTQPRRIAAISIARRVSQEREWTLGS 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 141 LVGYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVktaqKRRKELGKLPLKVIV 220
Cdd:cd17988   79 LVGYQVGLERPASEETRLIYCTTGVLLQKLINNKTLTEYTHIILDEVHERDQELDFLLLVV----RRLLRTNSRHVKIIL 154

                        170
                 ....*....|....
gi 157786634 221 MSATMDVDLFSQYF 234
Cdd:cd17988  155 MSATISCKEFADYF 168
DEXQc_DQX1 cd17986
DEXQ-box helicase domain of DEAQ-box RNA dependent ATPase 1; DEAQ-box RNA dependent ATPase 1 ...
 65-239 1.10e-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: 138.49  E-value: 1.10e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLI-GETGSGKTTQIPQYLYEGGISRQ---GIIAVTQPRRVAAISLATRVSDEKRTELGK 140
Cdd:cd17986    1 LPIWAAKFTFLEQLESPSGIVLVsGEPGSGKSTQVPQWCAEFALSRGfqkGQVTVTQPHPLAARSLALRVADEMDLNLGH 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 141 LVGYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKELgKLplkVIV 220
Cdd:cd17986   81 EVGYSIPQEDCTGPNTILRFCWDRLLLQEMTSTPLLGAWGVVVLDEAQERSVASDSLLGLLKDVRLQRPEL-RV---VVV 156

                        170
                 ....*....|....*....
gi 157786634 221 MSATMDVDLFSqYFNGAPV 239
Cdd:cd17986  157 TSPALEPKLRA-FWGNPPV 174
DEXHc_DHX30 cd17976
DEXH-box helicase domain of DEAH-box helicase 30; DEAH-box helicase 30 (DHX30) plays an ...
 65-240 5.30e-35

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: 130.68  E-value: 5.30e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGISR-QGI---IAVTQPRRVAAISLATRVSDEKRTELGK 140
Cdd:cd17976    1 LPVDSHKESILSAIEQNPVVVISGDTGCGKTTRIPQFILEDYVLRgRGArcnVVITQPRRISAVSVAQRVAHELGPNLRR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 141 LVGYTVRFED-VTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklpLKVI 219
Cdd:cd17976   81 NVGYQVRLESrPPPRGGALLFCTVGVLLKKLQSNPRLEGVSHVIVDEVHERDVNTDFLLILLKGVLQLNPE-----LRVV 155

                        170       180
                 ....*....|....*....|.
gi 157786634 220 VMSATMDVDLFSQYFNGAPVL 240
Cdd:cd17976  156 LMSATGDNQRLSRYFGGCPVV 176
DEXHc_DHX32 cd17977
DEXH-box helicase domain of DEAH-box helicase 32; DEAH-box helicase 32 (DHX32) belongs to the ...
 65-240 7.45e-34

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: 127.63  E-value: 7.45e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  65 LPIFRARGQLLAQLRNLDNAVLIGETGSGKTTQIPQYLYEGGIS---RQGIIAVTQPRRVAAISLATRVSDEKRTELGKL 141
Cdd:cd17977    1 LPVWEAKYEFMESLAHNQIVIVSGDAKTGKSSQIPQWCAEYCLSahyQHGVVVCTQVHKQTAVWLALRVADEMDVNIGHE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 142 VGYTVRFEDVTSEDTRIKFLTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKRRKElgklpLKVIVM 221
Cdd:cd17977   81 VGYVIPFENCCTNETILRYCTDDMLLREMMSDPLLESYGVIILDDAHERTVSTDVLLGLLKDVLLSRPE-----LKLVII 155

                        170
                 ....*....|....*....
gi 157786634 222 SATMDVDLFSQYFNGAPVL 240
Cdd:cd17977  156 TCPHLSSKLLSYYGNVPLI 174
HA2 pfam04408
Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in ...
 462-553 7.08e-24

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: 96.54  E-value: 7.08e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  462 AIAQLDLLGALehkDDQLALTPIGRKMAAFPLEPKFAKTILLSSKFHCTEEILTIVSLLSVDSVLYNPP----------- 530
Cdd:pfam04408   1 ALELLYYLGAL---DEDGELTPLGRKMAELPLDPRLAKMLLAAAELGCLDEVLTIVAALSVRDPFVQPNfldprsaakaa 77

                          90       100
                  ....*....|....*....|....*..
gi 157786634  531 --ARRDEVQSVRKKFISS--EGDHITL 553
Cdd:pfam04408  78 rrRRRAADEKARAKFARLdlEGDHLTL 104
HA2 smart00847
Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino ...
 469-554 1.00e-23

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: 95.41  E-value: 1.00e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   469 LGALehkDDQLALTPIGRKMAAFPLEPKFAKTILLSSKFHCTEEILTIVSLLSVDSvlYNPPARRDEVQSVRKKFISSEG 548
Cdd:smart00847   2 LGAL---DDDGRLTPLGRKMAELPLDPRLAKMLLAAAEFGCLDEILTIVAMLSVGD--PRPKEKREDADAARRRFADPES 76


                   ....*.
gi 157786634   549 DHITLL 554
Cdd:smart00847  77 DHLTLL 82
DEXDc smart00487
DEAD-like helicases superfamily;
49-252 5.48e-23

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 97.18  E-value: 5.48e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634    49 PSASPYREALELQRRSLPIFrargqllaqLRNLDNAVLIGETGSGKTTQIPQYLYEGGISRQGIIA-VTQPRRVAAISLA 127
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEAL---------LSGLRDVILAAPTGSGKTLAALLPALEALKRGKGGRVlVLVPTRELAEQWA 71

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   128 TRVSDEKRTELGKLVGYTV------RFEDVTSEDTRIKFLTDGMLLREAISDSL-LRKYSCVILDEAHERT--IHTDVLF 198
Cdd:smart00487  72 EELKKLGPSLGLKVVGLYGgdskreQLRKLESGKTDILVTTPGRLLDLLENDKLsLSNVDLVILDEAHRLLdgGFGDQLE 151

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 157786634   199 GVVKTAQKRRkelgklplKVIVMSATM--DVDLFSQYFNGAPVLYLEGR--QHPIQIF 252
Cdd:smart00487 152 KLLKLLPKNV--------QLLLLSATPpeEIENLLELFLNDPVFIDVGFtpLEPIEQF 201
PHA02653 PHA02653
RNA helicase NPH-II; Provisional
 73-413 1.09e-16

RNA helicase NPH-II; Provisional


Pssm-ID: 177443 [Multi-domain]  Cd Length: 675  Bit Score: 84.26  E-value: 1.09e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  73 QLLAQLRNLDNAVLIGETGSGKTTQIPQ------YLYeGGISRQGIIAVTQPRRVAAISLAtrvsdekRTELGKLVGYT- 145
Cdd:PHA02653 171 KIFEAWISRKPVVLTGGTGVGKTSQVPKlllwfnYLF-GGFDNLDKIDPNFIERPIVLSLP-------RVALVRLHSITl 242

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 146 ---------------VRFEDVTSEDTRIKFLTDGMLLR-EAISDSLLRKYSCVILDEAHERTIHTDVLFGVVktaqkrRK 209
Cdd:PHA02653 243 lkslgfdeidgspisLKYGSIPDELINTNPKPYGLVFStHKLTLNKLFDYGTVIIDEVHEHDQIGDIIIAVA------RK 316

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 210 ELGKLPlKVIVMSATM--DVDLFSQYFNGAPVLYLEGRQ-HPIQIFYTKQPQQDYLHAA--------LVSVFQIHQEAPS 278
Cdd:PHA02653 317 HIDKIR-SLFLMTATLedDRDRIKEFFPNPAFVHIPGGTlFPISEVYVKNKYNPKNKRAyieeekknIVTALKKYTPPKG 395

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 279 SQDIlVFLtgqeeiEAMSKtCRDIAKHLPDGCPSMLVLPLYASLP-YSQQLRVFQGAPKgyRKVIISTNIAETSITITGI 357
Cdd:PHA02653 396 SSGI-VFV------ASVSQ-CEEYKKYLEKRLPIYDFYIIHGKVPnIDEILEKVYSSKN--PSIIISTPYLESSVTIRNA 465

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 157786634 358 KYVVDTGMVKAKKynPDSGLEVLavqrVSKTQAWQRTGRAGREDSGICYRLYTEDE 413
Cdd:PHA02653 466 THVYDTGRVYVPE--PFGGKEMF----ISKSMRTQRKGRVGRVSPGTYVYFYDLDL 515
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 611-688 3.85e-16

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: 73.83  E-value: 3.85e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  611 VRRCLAHSLFMSTAELQPDG-TYATTDTHQPVAIHPSSVLFHC---KPACVVYTSLLYTNKCYMRDLCVVDAEWLYEAAP 686
Cdd:pfam07717   1 LRAALAAGLYPNVARRDPKGkGYTTLSDNQRVFIHPSSVLFNEktfPPEWVVYQELVETTKVYIRTVTAISPEWLLLFAP 80


                  ..
gi 157786634  687 DY 688
Cdd:pfam07717  81 HI 82
HELICc smart00490
helicase superfamily c-terminal domain;
315-399 1.01e-11

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 61.07  E-value: 1.01e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   315 VLPLYASLPYSQQLRVFQGAPKGYRKVIISTNIAETSITITGIKYVVDTGMvkakkynpdsglevlavqRVSKTQAWQRT 394
Cdd:smart00490  14 VARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDL------------------PWSPASYIQRI 75


                   ....*
gi 157786634   395 GRAGR 399
Cdd:smart00490  76 GRAGR 80
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 271-399 2.92e-11

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: 60.69  E-value: 2.92e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  271 QIHQEAPSSQdILVFLTGQEEIEAMSKTCRDIAKhlpdgcpsmlVLPLYASLPYSQQLRVFQGAPKGYRKVIISTNIAET 350
Cdd:pfam00271   8 ELLKKERGGK-VLIFSQTKKTLEAELLLEKEGIK----------VARLHGDLSQEEREEILEDFRKGKIDVLVATDVAER 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 157786634  351 SITITGIKYVVDtgmvkakkYNPDSGLEVLavqrvsktqaWQRTGRAGR 399
Cdd:pfam00271  77 GLDLPDVDLVIN--------YDLPWNPASY----------IQRIGRAGR 107
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 83-224 5.51e-07

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: 49.71  E-value: 5.51e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  83 NAVLIGETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSDEKRteLGKLVGYTVRFEDVtSEDTRIKFL- 161
Cdd:cd00046    3 NVLITAPTGSGKTLAALLAALLLLLKKGKKVLVLVPTKALALQTAERLRELFG--PGIRVAVLVGGSSA-EEREKNKLGd 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 157786634 162 ------TDGMLLR--EAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTAQKrrkeLGKLPLKVIVMSAT 224
Cdd:cd00046   80 adiiiaTPDMLLNllLREDRLFLKDLKLIIVDEAHALLIDSRGALILDLAVRK----AGLKNAQVILLSAT 146
DEXHc_viral_Ns3 cd17931
DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional ...
 84-224 6.63e-07

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: 49.47  E-value: 6.63e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  84 AVLIGETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVSdekrtelGKLVGYtvRFEDVTSEDTR---IKF 160
Cdd:cd17931    4 TVLDLHPGAGKTTRVLPQIIREAIKKRLRTLVLAPTRVVAAEMYEALR-------GLPIRY--RTGAVKEEHGGneiVDY 74

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 157786634 161 LTDGMLLREAISDSLLRKYSCVILDEAHERTIHTDVLFGVVKTaqkrRKELGKlpLKVIVMSAT 224
Cdd:cd17931   75 MCHGTFTCRLLSPKRVPNYNLIIMDEAHFTDPASIAARGYIHT----RVEMGE--AAVIFMTAT 132
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 82-229 3.67e-06

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: 47.62  E-value: 3.67e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   82 DNAVLIGETGSGKTT--QIP--QYLYEGGISRQGIIAVtqPRRvaaiSLATRVSDEKRtELGKLVGYTVRFE---DVTSE 154
Cdd:pfam00270  15 RDVLVQAPTGSGKTLafLLPalEALDKLDNGPQALVLA--PTR----ELAEQIYEELK-KLGKGLGLKVASLlggDSRKE 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  155 D------TRIKFLTDGMLLREAISDSLLRKYSCVILDEAHErtiHTDVLFGVVKtaqkrRKELGKLPLK--VIVMSATMD 226
Cdd:pfam00270  88 QleklkgPDILVGTPGRLLDLLQERKLLKNLKLLVLDEAHR---LLDMGFGPDL-----EEILRRLPKKrqILLLSATLP 159


                  ...
gi 157786634  227 VDL 229
Cdd:pfam00270 160 RNL 162
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 340-409 1.77e-04

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: 40.38  E-value: 1.77e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 157786634 340 KVIISTNIAETSITITGIKYVVDTGMVKakkynpdsglevlavqrvSKTQAWQRTGRAGR--EDSGICYRLY 409
Cdd:cd18785   24 EILVATNVLGEGIDVPSLDTVIFFDPPS------------------SAASYIQRVGRAGRggKDEGEVILFV 77
DEAHc_XPD-like cd17915
DEAH-box helicase domain of XPD family DEAD-like helicases; The xeroderma pigmentosum group D ...
 90-243 4.04e-04

DEAH-box helicase domain of XPD family DEAD-like helicases; The xeroderma pigmentosum group D (XPD)-like family members 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: 350673 [Multi-domain]  Cd Length: 138  Bit Score: 40.88  E-value: 4.04e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634  90 TGSGKTTQipqylyeggiSRQGIIAVTQPRRVAAISLATRVSDEKRT---ELGKLVGYT-VRFEDVTSEDTRIKFLTDGM 165
Cdd:cd17915   10 TGSGKTLS----------LLCSALSYQREFHKTKVLYCSRTHSQIEQiirELRKLLEKRkIRALALSSRDADIVVLPYPY 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634 166 LLREAISDS--LLRKYSCVILDEAHertihtdvlfgvvktaqkrrkelgKLP-LKVIVMSATMD-VDLFSQYFNGAPVLY 241
Cdd:cd17915   80 LLDARIREFigIDLREQVVIIDEAH------------------------NLDeRSVIITSGTLSpLDIYSKILGIRNMLV 135


                 ..
gi 157786634 242 LE 243
Cdd:cd17915  136 LA 137
AAA_22 pfam13401
AAA domain;
85-188 8.85e-03

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 36.94  E-value: 8.85e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786634   85 VLIGETGSGKTTQIPQYLYEGGISRQGIIAVTQPRRVAAISLATRVsdekRTELGKLVGYTVRFEDvtsedtrikfltdg 164
Cdd:pfam13401   9 VLTGESGTGKTTLLRRLLEQLPEVRDSVVFVDLPSGTSPKDLLRAL----LRALGLPLSGRLSKEE-------------- 70

                          90       100
                  ....*....|....*....|....*.
gi 157786634  165 mlLREAISDSLLRKYS--CVILDEAH 188
Cdd:pfam13401  71 --LLAALQQLLLALAVavVLIIDEAQ 94
 
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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