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Conserved domains on  [gi|17507503|ref|NP_492260|]
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RNA helicase [Caenorhabditis elegans]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEXHc_RHA-like cd17917
DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) ...
 198-359 6.48e-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: 273.95  E-value: 6.48e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  198 NVVIISGGTGCGKTTQVPQFILDEAHENNKHVRVMVTQPRRIAAISIAERVARERGEPIGRTVGYQVRLDSRRSDDTVLT 277
Cdd:cd17917    2 QVVVIVGETGSGKTTQVPQFLLEDGLAKGGKGRIVCTQPRRIAAISVAERVAEERGEKLGEEVGYQIRFESKTSSKTRIK 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  278 YCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSATIegNMQLFSNYFENHSmdVI 357
Cdd:cd17917   82 FCTDGILLRELLSDPLLSGYSHVILDEAHERSLDTDFLLGLLKDLLRKRPDLKVILMSATL--DAEKFSSYFGGAP--VI 157


                 ..
gi 17507503  358 RI 359
Cdd:cd17917  158 HI 159
HrpA super family cl34328
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
630-988 7.97e-57

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: 213.02  E-value: 7.97e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  630 LLDQVIQYLADSPvfGTILVFLPGYEDI---QQMLKAidcwknslKNMKNVIVLPLHSQMtSINHGD-IFKSVPKDTRKI 705
Cdd:COG1643  208 VADAVREALAEEP--GDILVFLPGEREIrrtAEALRG--------RLPPDTEILPLYGRL-SAAEQDrAFAPAPHGRRRI 276

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  706 ILATNIAEASITIEDVIFVVDTGKVKEKSFDHEAKLSTLTVKPIARSNADQRSGRAGRVANGYCIRLYTEQEYNSMPETQ 785
Cdd:COG1643  277 VLATNIAETSLTVPGIRYVIDSGLARIPRYDPRSGVTRLPTERISQASANQRAGRAGRLAPGICYRLWSEEDFARRPAFT 356

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  786 IAEMKRAAIYDVTLHAKLfapktLKISEFLSLA-PEPPEKESILQAITFLEQIGAFytpikiyDnsgneeglkndeeaen 864
Cdd:COG1643  357 DPEILRADLASLILELAA-----WGLGDPEDLPfLDPPPARAIADARALLQELGAL-------D---------------- 408

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  865 senpEDPELTDLGRLMARLPLDPQLSRMLLFGLALKCLtpivNLVALLASrepyvlALSEdRDLqskmkfeMAQQDLSDH 944
Cdd:COG1643  409 ----ADGRLTPLGRALARLPLDPRLARMLLAAAELGCL----REAAILAA------LLSE-RDP-------RRGAAGSDL 466

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....
gi 17507503  945 LLYIRLCNEFCSKnnsqqnqfcRDHFLNFSTMRMVQGTRRQLLR 988
Cdd:COG1643  467 LARLNLWRRLREQ---------QREFLSYLRLREWRDLARQLRR 501
R3H smart00393
Putative single-stranded nucleic acids-binding domain;
21-100 2.76e-17

Putative single-stranded nucleic acids-binding domain;


:

Pssm-ID: 214647  Cd Length: 79  Bit Score: 77.73  E-value: 2.76e-17
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503      21 NGFDASRVLPRGTDNDTRKEYRRVANEIIRsFLKSGQKNTTLEPMGRDQRKVMHEVALLNEMTTKSHGREPDRYMILSKR 100
Cdd:smart00393    1 ADFLPVTLDALSYRPRRREELIELELEIAR-FVKSTKESVELPPMNSYERKIVHELAEKYGLESESFGEGPKRRVVISKK 79
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 1023-1116 1.96e-11

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: 61.11  E-value: 1.96e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   1023 IQAVIAAGCYPFIGVSASESNLKKvQTFNDKPAFLHPSSMVkkqivkmgKSEKSPRVEYVAFQEMcqMPSDRsLSMKTVT 1102
Cdd:pfam07717    1 LRAALAAGLYPNVARRDPKGKGYT-TLSDNQRVFIHPSSVL--------FNEKTFPPEWVVYQEL--VETTK-VYIRTVT 68

                           90
                   ....*....|....
gi 17507503   1103 VIPSMTALLFTGPI 1116
Cdd:pfam07717   69 AISPEWLLLFAPHI 82
 
Name Accession Description Interval E-value
DEXHc_RHA-like cd17917
DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) ...
 198-359 6.48e-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: 273.95  E-value: 6.48e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  198 NVVIISGGTGCGKTTQVPQFILDEAHENNKHVRVMVTQPRRIAAISIAERVARERGEPIGRTVGYQVRLDSRRSDDTVLT 277
Cdd:cd17917    2 QVVVIVGETGSGKTTQVPQFLLEDGLAKGGKGRIVCTQPRRIAAISVAERVAEERGEKLGEEVGYQIRFESKTSSKTRIK 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  278 YCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSATIegNMQLFSNYFENHSmdVI 357
Cdd:cd17917   82 FCTDGILLRELLSDPLLSGYSHVILDEAHERSLDTDFLLGLLKDLLRKRPDLKVILMSATL--DAEKFSSYFGGAP--VI 157


                 ..
gi 17507503  358 RI 359
Cdd:cd17917  158 HI 159
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
630-988 7.97e-57

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


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 213.02  E-value: 7.97e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  630 LLDQVIQYLADSPvfGTILVFLPGYEDI---QQMLKAidcwknslKNMKNVIVLPLHSQMtSINHGD-IFKSVPKDTRKI 705
Cdd:COG1643  208 VADAVREALAEEP--GDILVFLPGEREIrrtAEALRG--------RLPPDTEILPLYGRL-SAAEQDrAFAPAPHGRRRI 276

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  706 ILATNIAEASITIEDVIFVVDTGKVKEKSFDHEAKLSTLTVKPIARSNADQRSGRAGRVANGYCIRLYTEQEYNSMPETQ 785
Cdd:COG1643  277 VLATNIAETSLTVPGIRYVIDSGLARIPRYDPRSGVTRLPTERISQASANQRAGRAGRLAPGICYRLWSEEDFARRPAFT 356

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  786 IAEMKRAAIYDVTLHAKLfapktLKISEFLSLA-PEPPEKESILQAITFLEQIGAFytpikiyDnsgneeglkndeeaen 864
Cdd:COG1643  357 DPEILRADLASLILELAA-----WGLGDPEDLPfLDPPPARAIADARALLQELGAL-------D---------------- 408

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  865 senpEDPELTDLGRLMARLPLDPQLSRMLLFGLALKCLtpivNLVALLASrepyvlALSEdRDLqskmkfeMAQQDLSDH 944
Cdd:COG1643  409 ----ADGRLTPLGRALARLPLDPRLARMLLAAAELGCL----REAAILAA------LLSE-RDP-------RRGAAGSDL 466

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....
gi 17507503  945 LLYIRLCNEFCSKnnsqqnqfcRDHFLNFSTMRMVQGTRRQLLR 988
Cdd:COG1643  467 LARLNLWRRLREQ---------QREFLSYLRLREWRDLARQLRR 501
SF2_C_RHA cd18791
C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A ...
 616-773 1.42e-54

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: 187.74  E-value: 1.42e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  616 LFYGSSSNNSVDYVLLDQVIQYLADSPVFGTILVFLPGYEDIQQMLKAIDCwKNSLKNMKNVIVLPLHSQMTSINHGDIF 695
Cdd:cd18791   15 LGISSEKEDPDYVDAAVRLILQIHRTEEPGDILVFLPGQEEIERLCELLRE-ELLSPDLGKLLVLPLHSSLPPEEQQRVF 93

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 17507503  696 KSVPKDTRKIILATNIAEASITIEDVIFVVDTGKVKEKSFDHEAKLSTLTVKPIARSNADQRSGRAGRVANGYCIRLY 773
Cdd:cd18791   94 EPPPPGVRKVVLATNIAETSITIPGVVYVIDSGLVKEKVYDPRTGLSSLVTVWISKASAEQRAGRAGRTRPGKCYRLY 171
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
180-372 9.51e-54

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


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 203.77  E-value: 9.51e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  180 SLPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENNKhvRVMVTQPRRIAAISIAERVARERGEPIGRT 259
Cdd:COG1643    9 DLPVSAVLPELLAALRAHQVVVLAAPPGAGKTTQLPLALLELGWGAGG--RIGMLEPRRLAARAAAERMAEELGEPVGET 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  260 VGYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECL-KMRPDLKVILMSATI 338
Cdd:COG1643   87 VGYRVRFEDKVSAATRIEVVTEGILLRELQRDPELEGVDTVIFDEFHERSLNADLLLALLLDLQpALRPDLKLLVMSATL 166

                        170       180       190
                 ....*....|....*....|....*....|....
gi 17507503  339 EGnmQLFSNYFENHSmdVIRIESRAFDVKVFYLD 372
Cdd:COG1643  167 DA--ERFARLLGDAP--VIESSGRTYPVEVRYRP 196
DEAH_box_HrpA TIGR01967
RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ...
 180-416 3.63e-40

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: 163.02  E-value: 3.63e-40
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    180 SLPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHenNKHVRVMVTQPRRIAAISIAERVARERGEPIGRT 259
Cdd:TIGR01967   65 NLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGR--GSHGLIGHTQPRRLAARTVAQRIAEELGTPLGEK 142

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    260 VGYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSATIE 339
Cdd:TIGR01967  143 VGYKVRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDLKIIITSATID 222

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    340 gnMQLFSNYFENhsMDVIRIESRAFDVKVFY--LDQILAMTGYQPPESkAFFSTAEYEEEDWKDEIEAV--EREEKDKAK 415
Cdd:TIGR01967  223 --PERFSRHFNN--APIIEVSGRTYPVEVRYrpLVEEQEDDDLDQLEA-ILDAVDELFAEGPGDILIFLpgEREIRDAAE 297


                   .
gi 17507503    416 Q 416
Cdd:TIGR01967  298 I 298
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
 630-992 4.26e-39

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 159.46  E-value: 4.26e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   630 LLDQVIQYLADSPvfGTILVFLPGYEDIQQMLKAIdcwknSLKNMKNVIVLPLHSQMTSINHGDIFKsvPKDTRKIILAT 709
Cdd:PRK11131  274 IFDAVDELGREGP--GDILIFMSGEREIRDTADAL-----NKLNLRHTEILPLYARLSNSEQNRVFQ--SHSGRRIVLAT 344

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   710 NIAEASITIEDVIFVVDTGKVKEKSFDHEAKLSTLTVKPIARSNADQRSGRAGRVANGYCIRLYTEQEYNSMPETQIAEM 789
Cdd:PRK11131  345 NVAETSLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVSEGICIRLYSEDDFLSRPEFTDPEI 424

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   790 KRAAIYDVTLhaKLFAPKTLKISEFlslaP--EPPEKESILQAITFLEQIGAFYTpikiydnsgneeglkndeeaenSEN 867
Cdd:PRK11131  425 LRTNLASVIL--QMTALGLGDIAAF----PfvEAPDKRNIQDGVRLLEELGAITT----------------------DEQ 476

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   868 PEDPELTDLGRLMARLPLDPQLSRMLLFGLALKCLTPIVNLVALLASREPYVLALseDRDLQSKMKFEMAQQDLSDHLLY 947
Cdd:PRK11131  477 ASAYKLTPLGRQLAQLPVDPRLARMVLEAQKHGCVREVMIITSALSIQDPRERPM--DKQQASDEKHRRFADKESDFLAF 554

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|...
gi 17507503   948 IRLCNEFcsknNSQQ-----NQF---CRDHFLNFSTMRMVQGTRRQlLRELVR 992
Cdd:PRK11131  555 VNLWNYL----QEQQkalssNQFrrlCRTDYLNYLRVREWQDIYTQ-LRQVVK 602
PRK11664 PRK11664
ATP-dependent RNA helicase HrpB; Provisional
 179-917 2.67e-38

ATP-dependent RNA helicase HrpB; Provisional


Pssm-ID: 236950 [Multi-domain]  Cd Length: 812  Bit Score: 155.47  E-value: 2.67e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   179 NSLPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILdeaHENNKHVRVMVTQPRRIAAISIAERVARERGEPIGR 258
Cdd:PRK11664    2 SSLPVAAVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLL---QHGGINGKIIMLEPRRLAARNVAQRLAEQLGEKPGE 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   259 TVGYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDY---LLIALRECLkmRPDLKVILMS 335
Cdd:PRK11664   79 TVGYRMRAESKVGPNTRLEVVTEGILTRMIQRDPELSGVGLVILDEFHERSLQADLalaLLLDVQQGL--RDDLKLLIMS 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   336 ATIegnmqlfsnyfENHSM-----DVIRIES--RAFDVKvfyldqilamTGYQPPESKAFFSTAeyeeedwkdeieaver 408
Cdd:PRK11664  157 ATL-----------DNDRLqqllpDAPVIVSegRSFPVE----------RRYQPLPAHQRFDEA---------------- 199

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   409 eekdkakqraadsslstlskpvtkMAANTKRnspieerewtsgpcstpdgdiideramrqymniignpdirpvitvefrp 488
Cdd:PRK11664  200 ------------------------VARATAE------------------------------------------------- 206

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   489 ttpnsvfindvkyttnpnqsaqaLLQQKrerclmprgpltftcenpasttksppsptptlgiSSGLAKFTPfgGFGEKQR 568
Cdd:PRK11664  207 -----------------------LLRQE----------------------------------SGSLLLFLP--GVGEIQR 227

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   569 ISTLLEkkfkeelktalpdrtvyyhpqmNDVVDKTDFSKLrfgekynlfYGSSSnnsvdyvlldqviqyLADspvfgtil 648
Cdd:PRK11664  228 VQEQLA----------------------SRVASDVLLCPL---------YGALS---------------LAE-------- 253

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   649 vflpgyediQQmlKAIdcwknslknmknvivLPlhsqmtsinhgdifksVPKDTRKIILATNIAEASITIEDVIFVVDTG 728
Cdd:PRK11664  254 ---------QQ--KAI---------------LP----------------APAGRRKVVLATNIAETSLTIEGIRLVVDSG 291

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   729 KVKEKSFDHEAKLSTLTVKPIARSNADQRSGRAGRVANGYCIRLYTEQEYNSMPETQIAEMkraaiydvtLHAKLFA--- 805
Cdd:PRK11664  292 LERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRLEPGICLHLYSKEQAERAAAQSEPEI---------LHSDLSGlll 362

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   806 ---------PKTLKiseFLSLAPEPpekeSILQAITFLEQIGAFytpikiyDNSGneeglkndeeaensenpedpELTDL 876
Cdd:PRK11664  363 ellqwgchdPAQLS---WLDQPPAA----ALAAAKRLLQQLGAL-------DGQG--------------------RLTAR 408

                         730       740       750       760
                  ....*....|....*....|....*....|....*....|...
gi 17507503   877 GRLMARLPLDPQLSRMLLFG--LALKCLTPIVNLVALLasREP 917
Cdd:PRK11664  409 GRKMAALGNDPRLAAMLVAAkeDDEAALATAAKLAAIL--EEP 449
DEXDc smart00487
DEAD-like helicases superfamily;
189-369 2.45e-28

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 113.74  E-value: 2.45e-28
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503     189 QVLKSISSCN-VVIISGGTGCGKTTQVPQFILDEAHENnKHVRVMVTQPRRIAAISIAERVARERGEPIGRTVGYQVRLD 267
Cdd:smart00487   15 EAIEALLSGLrDVILAAPTGSGKTLAALLPALEALKRG-KGGRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDS 93

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503     268 SR------RSDDTVLTYCTTGVLLRMLTSDPVA-SGITHIVMDEIHEReINTDYLLIALRECLKMRPDLKVILMSATIEG 340
Cdd:smart00487   94 KReqlrklESGKTDILVTTPGRLLDLLENDKLSlSNVDLVILDEAHRL-LDGGFGDQLEKLLKLLPKNVQLLLLSATPPE 172

                           170       180
                    ....*....|....*....|....*....
gi 17507503     341 NMQLFSNYFENHSMDVIRIESRAFDVKVF 369
Cdd:smart00487  173 EIENLLELFLNDPVFIDVGFTPLEPIEQF 201
HA2 pfam04408
Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in ...
 869-947 1.49e-18

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: 82.29  E-value: 1.49e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    869 EDPELTDLGRLMARLPLDPQLSRMLLFGLALKCLTPIVNLVALLASREPYVLALSEDRDLQSKMKFEMA----------- 937
Cdd:pfam04408   13 EDGELTPLGRKMAELPLDPRLAKMLLAAAELGCLDEVLTIVAALSVRDPFVQPNFLDPRSAAKAARRRRraadekarakf 92

                           90
                   ....*....|..
gi 17507503    938 --QQDLSDHLLY 947
Cdd:pfam04408   93 arLDLEGDHLTL 104
R3H smart00393
Putative single-stranded nucleic acids-binding domain;
21-100 2.76e-17

Putative single-stranded nucleic acids-binding domain;


Pssm-ID: 214647  Cd Length: 79  Bit Score: 77.73  E-value: 2.76e-17
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503      21 NGFDASRVLPRGTDNDTRKEYRRVANEIIRsFLKSGQKNTTLEPMGRDQRKVMHEVALLNEMTTKSHGREPDRYMILSKR 100
Cdd:smart00393    1 ADFLPVTLDALSYRPRRREELIELELEIAR-FVKSTKESVELPPMNSYERKIVHELAEKYGLESESFGEGPKRRVVISKK 79
HA2 smart00847
Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino ...
 869-948 7.14e-16

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: 73.84  E-value: 7.14e-16
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503     869 EDPELTDLGRLMARLPLDPQLSRMLLFGLALKCLTPIVNLVALLASREPYVLALSEDRDlQSKMKFemaQQDLSDHLLYI 948
Cdd:smart00847    7 DDGRLTPLGRKMAELPLDPRLAKMLLAAAEFGCLDEILTIVAMLSVGDPRPKEKREDAD-AARRRF---ADPESDHLTLL 82
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 189-345 3.91e-14

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: 71.50  E-value: 3.91e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    189 QVLKSISSCNVVIISGGTGCGKTT--QVPqfILDEAHENNKHVRVMVTQPRRIAAISIAERvARERGEPIGRTVGYQVRL 266
Cdd:pfam00270    6 EAIPAILEGRDVLVQAPTGSGKTLafLLP--ALEALDKLDNGPQALVLAPTRELAEQIYEE-LKKLGKGLGLKVASLLGG 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    267 DSRRSDDTVL-----TYCTTGVLLRMLTSDPVASGITHIVMDEIHerEINTDYLLIALRECLK-MRPDLKVILMSATIEG 340
Cdd:pfam00270   83 DSRKEQLEKLkgpdiLVGTPGRLLDLLQERKLLKNLKLLVLDEAH--RLLDMGFGPDLEEILRrLPKKRQILLLSATLPR 160


                   ....*
gi 17507503    341 NMQLF 345
Cdd:pfam00270  161 NLEDL 165
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 1023-1116 1.96e-11

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: 61.11  E-value: 1.96e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   1023 IQAVIAAGCYPFIGVSASESNLKKvQTFNDKPAFLHPSSMVkkqivkmgKSEKSPRVEYVAFQEMcqMPSDRsLSMKTVT 1102
Cdd:pfam07717    1 LRAALAAGLYPNVARRDPKGKGYT-TLSDNQRVFIHPSSVL--------FNEKTFPPEWVVYQEL--VETTK-VYIRTVT 68

                           90
                   ....*....|....
gi 17507503   1103 VIPSMTALLFTGPI 1116
Cdd:pfam07717   69 AISPEWLLLFAPHI 82
R3H pfam01424
R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most ...
 42-99 1.60e-10

R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to be binding ssDNA.


Pssm-ID: 460206  Cd Length: 60  Bit Score: 57.89  E-value: 1.60e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 17507503     42 RRVANEIIRsFLKSGQKNTTLEPMGRDQRKVMHEVALLNEMTTKSHGREPDRYMILSK 99
Cdd:pfam01424    4 EQLAEKLAE-FVKDTGKSLELPPMSSYERRIIHELAQKYGLESESEGEEPNRRVVVYK 60
R3H cd02325
R3H domain. The name of the R3H domain comes from the characteristic spacing of the most ...
 42-99 6.75e-08

R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich repeats, ring-type zinc fingers, and KH domains. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.


Pssm-ID: 100064  Cd Length: 59  Bit Score: 50.31  E-value: 6.75e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 17507503   42 RRVANEIIRSFLKSGQKNT-TLEPMGRDQRKVMHEVALLNEMTTKSHGREPDRYMILSK 99
Cdd:cd02325    1 REEREEELEAFAKDAAGKSlELPPMNSYERKLIHDLAEYYGLKSESEGEGPNRRVVITK 59
Jag COG1847
Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General ...
 38-100 4.27e-04

Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General function prediction only];


Pssm-ID: 441452 [Multi-domain]  Cd Length: 143  Bit Score: 42.02  E-value: 4.27e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 17507503   38 RKEYRRVANEIIRSFLKSGqKNTTLEPMGRDQRKVMHEvALLNEM--TTKSHGREPDRYMILSKR 100
Cdd:COG1847   80 EEELEELARRAAEKVKRTG-KPVELEPMSPYERRIIHD-ALADDPgvETESEGEEPYRRVVISPK 142
 
Name Accession Description Interval E-value
DEXHc_RHA-like cd17917
DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) ...
 198-359 6.48e-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: 273.95  E-value: 6.48e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  198 NVVIISGGTGCGKTTQVPQFILDEAHENNKHVRVMVTQPRRIAAISIAERVARERGEPIGRTVGYQVRLDSRRSDDTVLT 277
Cdd:cd17917    2 QVVVIVGETGSGKTTQVPQFLLEDGLAKGGKGRIVCTQPRRIAAISVAERVAEERGEKLGEEVGYQIRFESKTSSKTRIK 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  278 YCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSATIegNMQLFSNYFENHSmdVI 357
Cdd:cd17917   82 FCTDGILLRELLSDPLLSGYSHVILDEAHERSLDTDFLLGLLKDLLRKRPDLKVILMSATL--DAEKFSSYFGGAP--VI 157


                 ..
gi 17507503  358 RI 359
Cdd:cd17917  158 HI 159
DEXHc_DHX57 cd17985
DEXH-box helicase domain of DEAH-box helicase 57; DEAH-box helicase 57 (DHX57) belongs to the ...
 181-359 5.88e-65

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: 217.79  E-value: 5.88e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHEN--NKHVRVMVTQPRRIAAISIAERVARERGEPIGR 258
Cdd:cd17985    1 LPAWQERETILELLEKHQVLVISGMTGCGKTTQIPQFILDNSLQGppLPVANIICTQPRRISAISVAERVAQERAERVGQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  259 TVGYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSATI 338
Cdd:cd17985   81 SVGYQIRLESVKSSATRLLYCTTGVLLRRLEGDPTLQGVTHVIVDEVHERTEESDFLLLVLKDLMVQRPDLKVILMSATL 160

                        170       180
                 ....*....|....*....|.
gi 17507503  339 egNMQLFSNYFenHSMDVIRI 359
Cdd:cd17985  161 --NAELFSDYF--NSCPVIHI 177
DEXHc_DHX9 cd17972
DEXH-box helicase domain of DEAH-box helicase 9; DEAH-box helicase 9 (DHX9, also known as ...
 173-351 9.77e-62

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: 210.85  E-value: 9.77e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  173 ELQKV---RNSLPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENNK--HVRVMVTQPRRIAAISIAER 247
Cdd:cd17972   48 NLQQIlqeRELLPVKKFREEILEAISNNPVVIIRGATGCGKTTQVPQYILDDFIQNDRaaECNIVVTQPRRISAVSVAER 127

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  248 VARERGEPIGRTVGYQVRLDS--RRSDDTVLtYCTTGVLLRMLTSDpvASGITHIVMDEIHEREINTDYLLIALRECLKM 325
Cdd:cd17972  128 VAFERGEEVGKSCGYSVRFESvlPRPHASIL-FCTVGVLLRKLEAG--IRGISHVIVDEIHERDINTDFLLVVLRDVVQA 204

                        170       180
                 ....*....|....*....|....*.
gi 17507503  326 RPDLKVILMSATIEGNMqlFSNYFEN 351
Cdd:cd17972  205 YPDLRVILMSATIDTSM--FCEYFFN 228
DEXHc_YTHDC2 cd17987
DEXH-box helicase domain of YTH domain containing 2; YTH domain containing 2 (YTHDC2) ...
 181-351 1.14e-60

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: 205.45  E-value: 1.14e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENNKHVRVMVTQPRRIAAISIAERVARERGEPIGRTV 260
Cdd:cd17987    1 LPVFEKQEQIVRIIKENKVVLIVGETGSGKTTQIPQFLLDDCYANGIPCRIFCTQPRRLAAIAVAERVAAERGEKIGQTV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  261 GYQVRLDSRRSDDTVLTYCTTGVLLRMLTS-DPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSATIE 339
Cdd:cd17987   81 GYQIRLESRVSPKTLLTFCTNGVLLRTLMAgDSALSTVTHVIVDEVHERDRFSDFLLTKLRDILQKHPNLKLILSSAALD 160

                        170
                 ....*....|..
gi 17507503  340 GNmqLFSNYFEN 351
Cdd:cd17987  161 VN--LFIRYFGS 170
DEXHc_DHX36 cd17981
DEXH-box helicase domain of DEAH-box helicase 36; DEAH-box helicase 36 (DHX36, also known as ...
 181-354 2.04e-60

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: 205.08  E-value: 2.04e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENNK--HVRVMVTQPRRIAAISIAERVARERGE--PI 256
Cdd:cd17981    1 LPSYGMKQEIINMIDNNQVTVISGETGCGKTTQVTQFILDDAIERGKgsSCRIVCTQPRRISAISVAERVAAERAEscGL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  257 GRTVGYQVRLDSRRS-DDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMS 335
Cdd:cd17981   81 GNSTGYQIRLESRKPrKQGSILYCTTGIVLQWLQSDPHLSNVSHLVLDEIHERNLQSDVLMGIVKDLLPFRSDLKVILMS 160

                        170
                 ....*....|....*....
gi 17507503  336 ATIegNMQLFSNYFENHSM 354
Cdd:cd17981  161 ATL--NAEKFSDYFNNCPM 177
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
630-988 7.97e-57

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


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 213.02  E-value: 7.97e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  630 LLDQVIQYLADSPvfGTILVFLPGYEDI---QQMLKAidcwknslKNMKNVIVLPLHSQMtSINHGD-IFKSVPKDTRKI 705
Cdd:COG1643  208 VADAVREALAEEP--GDILVFLPGEREIrrtAEALRG--------RLPPDTEILPLYGRL-SAAEQDrAFAPAPHGRRRI 276

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  706 ILATNIAEASITIEDVIFVVDTGKVKEKSFDHEAKLSTLTVKPIARSNADQRSGRAGRVANGYCIRLYTEQEYNSMPETQ 785
Cdd:COG1643  277 VLATNIAETSLTVPGIRYVIDSGLARIPRYDPRSGVTRLPTERISQASANQRAGRAGRLAPGICYRLWSEEDFARRPAFT 356

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  786 IAEMKRAAIYDVTLHAKLfapktLKISEFLSLA-PEPPEKESILQAITFLEQIGAFytpikiyDnsgneeglkndeeaen 864
Cdd:COG1643  357 DPEILRADLASLILELAA-----WGLGDPEDLPfLDPPPARAIADARALLQELGAL-------D---------------- 408

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  865 senpEDPELTDLGRLMARLPLDPQLSRMLLFGLALKCLtpivNLVALLASrepyvlALSEdRDLqskmkfeMAQQDLSDH 944
Cdd:COG1643  409 ----ADGRLTPLGRALARLPLDPRLARMLLAAAELGCL----REAAILAA------LLSE-RDP-------RRGAAGSDL 466

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....
gi 17507503  945 LLYIRLCNEFCSKnnsqqnqfcRDHFLNFSTMRMVQGTRRQLLR 988
Cdd:COG1643  467 LARLNLWRRLREQ---------QREFLSYLRLREWRDLARQLRR 501
DEXHc_DHX30 cd17976
DEXH-box helicase domain of DEAH-box helicase 30; DEAH-box helicase 30 (DHX30) plays an ...
 181-349 4.56e-56

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: 192.31  E-value: 4.56e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENNK--HVRVMVTQPRRIAAISIAERVARERGEPIGR 258
Cdd:cd17976    1 LPVDSHKESILSAIEQNPVVVISGDTGCGKTTRIPQFILEDYVLRGRgaRCNVVITQPRRISAVSVAQRVAHELGPNLRR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  259 TVGYQVRLDSRR-SDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSAT 337
Cdd:cd17976   81 NVGYQVRLESRPpPRGGALLFCTVGVLLKKLQSNPRLEGVSHVIVDEVHERDVNTDFLLILLKGVLQLNPELRVVLMSAT 160

                        170
                 ....*....|..
gi 17507503  338 ieGNMQLFSNYF 349
Cdd:cd17976  161 --GDNQRLSRYF 170
SF2_C_RHA cd18791
C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A ...
 616-773 1.42e-54

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: 187.74  E-value: 1.42e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  616 LFYGSSSNNSVDYVLLDQVIQYLADSPVFGTILVFLPGYEDIQQMLKAIDCwKNSLKNMKNVIVLPLHSQMTSINHGDIF 695
Cdd:cd18791   15 LGISSEKEDPDYVDAAVRLILQIHRTEEPGDILVFLPGQEEIERLCELLRE-ELLSPDLGKLLVLPLHSSLPPEEQQRVF 93

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 17507503  696 KSVPKDTRKIILATNIAEASITIEDVIFVVDTGKVKEKSFDHEAKLSTLTVKPIARSNADQRSGRAGRVANGYCIRLY 773
Cdd:cd18791   94 EPPPPGVRKVVLATNIAETSITIPGVVYVIDSGLVKEKVYDPRTGLSSLVTVWISKASAEQRAGRAGRTRPGKCYRLY 171
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
180-372 9.51e-54

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


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 203.77  E-value: 9.51e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  180 SLPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENNKhvRVMVTQPRRIAAISIAERVARERGEPIGRT 259
Cdd:COG1643    9 DLPVSAVLPELLAALRAHQVVVLAAPPGAGKTTQLPLALLELGWGAGG--RIGMLEPRRLAARAAAERMAEELGEPVGET 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  260 VGYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECL-KMRPDLKVILMSATI 338
Cdd:COG1643   87 VGYRVRFEDKVSAATRIEVVTEGILLRELQRDPELEGVDTVIFDEFHERSLNADLLLALLLDLQpALRPDLKLLVMSATL 166

                        170       180       190
                 ....*....|....*....|....*....|....
gi 17507503  339 EGnmQLFSNYFENHSmdVIRIESRAFDVKVFYLD 372
Cdd:COG1643  167 DA--ERFARLLGDAP--VIESSGRTYPVEVRYRP 196
DEXHc_TDRD9 cd17988
DEXH-box helicase domain of tudor domain containing 9; Tudor domain containing 9 (TDRD9, also ...
 181-349 1.52e-53

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: 185.40  E-value: 1.52e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENNKHVRVMVTQPRRIAAISIAERVARERGEPIGRTV 260
Cdd:cd17988    1 LPIYAKREEILSLIEANSVVIIKGATGCGKTTQLPQFILDHYYKRGKYCNIVVTQPRRIAAISIARRVSQEREWTLGSLV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  261 GYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPD-LKVILMSATIe 339
Cdd:cd17988   81 GYQVGLERPASEETRLIYCTTGVLLQKLINNKTLTEYTHIILDEVHERDQELDFLLLVVRRLLRTNSRhVKIILMSATI- 159

                        170
                 ....*....|
gi 17507503  340 gNMQLFSNYF 349
Cdd:cd17988  160 -SCKEFADYF 168
DEXHc_DHX29 cd17975
DEXH-box helicase domain of DEAH-box helicase 29; DEAH-box helicase 29 (DHX29) is a part of ...
 181-359 1.63e-50

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: 176.64  E-value: 1.63e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENNKHVR---VMVTQPRRIAAISIAERVARERGE--- 254
Cdd:cd17975    1 LPVFKHRESILETLKRHRVVVVAGETGSGKSTQVPQFLLEDLLLNGGTAQkcnIVCTQPRRISAMSLATRVCEELGCesg 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  255 PIGRT--VGYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVI 332
Cdd:cd17975   81 PGGKNslCGYQIRMESRTGEATRLLYCTTGVLLRKLQEDGLLSSISHIIVDEVHERSVQSDFLLIILKEILHKRSDLHLI 160

                        170       180
                 ....*....|....*....|....*..
gi 17507503  333 LMSATIEGnmQLFSNYFeNHSmDVIRI 359
Cdd:cd17975  161 LMSATVDC--EKFSSYF-THC-PILRI 183
DEXHc_DHX34 cd17979
DEXH-box helicase domain of DEAH-box helicase 34; DEAH-box helicase 34 (DHX34) plays a role in ...
 181-351 1.87e-48

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: 170.32  E-value: 1.87e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENnkhvrVMVTQPRRIAAISIAERVARERGEPIGRTV 260
Cdd:cd17979    1 LPIAQYREKIIELLKTHQVVIVAGDTGCGKSTQVPQYLLAAGFRH-----IACTQPRRIACISLAKRVAFESLNQYGSKV 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  261 GYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSATIeg 340
Cdd:cd17979   76 AYQIRFERTRTLATKLLFLTEGLLLRQIQRDASLPQYNVLILDEVHERHLHGDFLLGVLRCLLRLRPDLKLILMSATI-- 153

                        170
                 ....*....|.
gi 17507503  341 NMQLFSNYFEN 351
Cdd:cd17979  154 NIELFSGYFEG 164
DEXHc_DHX15 cd17973
DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA ...
 173-351 3.08e-47

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: 167.59  E-value: 3.08e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  173 ELQKVRNSLPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENNKHVRVMVTQPRRIAAISIAERVARER 252
Cdd:cd17973    5 EILEKRRELPVWEQKEDFLKLLKNNQILVLVGETGSGKTTQIPQFVLDDELPHQPKKLVACTQPRRVAAMSVAQRVAEEM 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  253 GEPIGRTVGYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVI 332
Cdd:cd17973   85 DVKLGEEVGYSIRFEDCSSAKTILKYMTDGMLLREAMSDPLLSRYSVIILDEAHERTLATDILMGLLKEVVRRRPDLKLI 164

                        170
                 ....*....|....*....
gi 17507503  333 LMSATIEGnmQLFSNYFEN 351
Cdd:cd17973  165 VMSATLDA--GKFQKYFDN 181
DEXHc_DHX33 cd17978
DEXH-box helicase domain of DEAH-box helicase 33; DEAH-box helicase 33 (DHX33) stimulates RNA ...
 181-351 9.64e-46

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: 162.91  E-value: 9.64e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENNKhvRVMVTQPRRIAAISIAERVARERGEPIGRTV 260
Cdd:cd17978    1 LPIYSARKRLLEELRKHDTVIIIGETGSGKTTQIPQYLYEAGFARGG--MIGITQPRRVAAVSVAKRVAEEMGVELGQLV 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  261 GYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMR-----PDLKVILMS 335
Cdd:cd17978   79 GYSVRFDDVTSEETRIKYMTDGMLLREAIGDPLLSKYSVIILDEAHERTVHTDVLFGLVKSAQRRRkeqklSPLKVIIMS 158

                        170
                 ....*....|....*.
gi 17507503  336 ATIEgnMQLFSNYFEN 351
Cdd:cd17978  159 ATLD--ADLFSEYFNG 172
DEXHc_HrpB cd17990
DEXH-box helicase domain of ATP-dependent helicase HrpB; HrpB is part of the HrpB-HrpA ...
 181-340 1.21e-45

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: 162.50  E-value: 1.21e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENNKhvRVMVTQPRRIAAISIAERVARERGEPIGRTV 260
Cdd:cd17990    1 LPIAAVLPALRAALDAGGQVVLEAPPGAGKTTRVPLALLAELWIAGG--KIIVLEPRRVAARAAARRLATLLGEAPGETV 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  261 GYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLK-MRPDLKVILMSATIE 339
Cdd:cd17990   79 GYRVRGESRVGRRTRVEVVTEGVLLRRLQRDPELSGVGAVILDEFHERSLDADLALALLLEVQQlLRDDLRLLAMSATLD 158


                 .
gi 17507503  340 G 340
Cdd:cd17990  159 G 159
DEXHc_DHX35 cd17980
DEXH-box helicase domain of DEAH-box helicase 35; DHX35 plays a role in colorectal cancers and ...
 181-350 4.60e-45

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: 161.10  E-value: 4.60e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFiLDEAHENNKHVRVMVTQPRRIAAISIAERVARERGEPIGRTV 260
Cdd:cd17980    1 LPVFKLRNHILYLVENYQTIVIVGETGCGKSTQIPQY-LAEAGWTAGGRVVGCTQPRRVAAVTVAGRVAEEMGAVLGHEV 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  261 GYQVRLDSRRSDD-TVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSATIE 339
Cdd:cd17980   80 GYCIRFDDCTDPQaTRIKFLTDGMLVREMMLDPLLTKYSVIMLDEAHERTLYTDILIGLLKKIQKKRGDLRLIVASATLD 159

                        170
                 ....*....|.
gi 17507503  340 GNmqLFSNYFE 350
Cdd:cd17980  160 AE--KFRDFFN 168
DEXHc_HrpA cd17989
DEXH-box helicase domain of ATP-dependent RNA helicase HrpA; HrpA is part of the HrpB-HrpA ...
 181-351 1.10e-42

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: 153.77  E-value: 1.10e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILdeahENNKHVRVMV--TQPRRIAAISIAERVARERGEPIGR 258
Cdd:cd17989    1 LPVSQKRDEIAKAIAENQVVIIAGETGSGKTTQLPKICL----ELGRGIRGLIghTQPRRLAARSVAERIAEELKTELGG 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  259 TVGYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSATI 338
Cdd:cd17989   77 AVGYKVRFTDQTSDETCVKLMTDGILLAETQTDRYLRAYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDLKVIITSATI 156

                        170
                 ....*....|...
gi 17507503  339 EgnMQLFSNYFEN 351
Cdd:cd17989  157 D--AERFSRHFNN 167
DEXHc_DHX16 cd17974
DEXH-box helicase domain of DEAH-box helicase 16; DEAH-box helicase 16 (DHX16) is probably ...
 181-351 1.16e-42

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: 153.81  E-value: 1.16e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFiLDEAHENNKHVRVMVTQPRRIAAISIAERVARERGEPIGRTV 260
Cdd:cd17974    1 LPVYPYRDDLLAAVKEHQVLIIVGETGSGKTTQIPQY-LHEAGYTKGGGKIGCTQPRRVAAMSVAARVAEEMGVKLGNEV 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  261 GYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSATIeg 340
Cdd:cd17974   80 GYSIRFEDCTSEKTVLKYMTDGMLLREFLTEPDLASYSVMIIDEAHERTLHTDILFGLVKDIARFRPDLKLLISSATM-- 157

                        170
                 ....*....|.
gi 17507503  341 NMQLFSNYFEN 351
Cdd:cd17974  158 DAEKFSAFFDD 168
DEXHc_DHX8 cd17971
DEXH-box helicase domain of DEAH-box helicase 8; DEAH-box helicase 8 (DHX8 ,also known as ...
 178-351 6.34e-41

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: 149.17  E-value: 6.34e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  178 RNSLPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENNKhvRVMVTQPRRIAAISIAERVARERGEPIG 257
Cdd:cd17971    3 RESLPIYKLKEQLIQAVHDNQILVVIGETGSGKTTQITQYLAEAGYTSRG--KIGCTQPRRVAAMSVAKRVAEEFGCCLG 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  258 RTVGYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSAT 337
Cdd:cd17971   81 QEVGYTIRFEDCTSPETVIKYMTDGMLLRECLIDPDLSQYSVIMLDEAHERTIHTDVLFGLLKKTVQKRPDLKLIVTSAT 160

                        170
                 ....*....|....
gi 17507503  338 IEGnmQLFSNYFEN 351
Cdd:cd17971  161 LDA--VKFSQYFYE 172
DEXHc_DHX38 cd17983
DEXH-box helicase domain of DEAH-box helicase 38; DEAH-box helicase 38 (DHX38, also known as ...
 181-351 2.03e-40

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: 147.22  E-value: 2.03e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFIldeaHENNKHVRVMV--TQPRRIAAISIAERVARERGEPIGR 258
Cdd:cd17983    1 LPIFAVRQELLNVIRDNNVVIVVGETGSGKTTQLTQYL----HEDGYTDYGMIgcTQPRRVAAMSVAKRVSEEMGVELGE 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  259 TVGYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSATI 338
Cdd:cd17983   77 EVGYAIRFEDCTSENTVIKYMTDGILLRESLRDPDLDKYSAIIMDEAHERSLNTDVLFGLLREVVARRRDLKLIVTSATM 156

                        170
                 ....*....|...
gi 17507503  339 egNMQLFSNYFEN 351
Cdd:cd17983  157 --DADKFADFFGN 167
DEXHc_DHX37 cd17982
DEXH-box helicase domain of DEAH-box helicase 37; DHX37 plays a role in the development of the ...
 189-347 2.15e-40

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: 147.89  E-value: 2.15e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  189 QVLKSISSCNVVIISGGTGCGKTTQVPQFiLDEA----HENNKHVRVMVTQPRRIAAISIAERVARERGEPiGRTVGYQV 264
Cdd:cd17982    9 EIMEAINENPVVIICGETGSGKTTQVPQF-LYEAgfgsPESDNPGMIGITQPRRVAAVSMAKRVAEELNVF-GKEVSYQI 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  265 RLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPD----------LKVILM 334
Cdd:cd17982   87 RYDSTVSENTKIKFMTDGVLLKEIQTDFLLRKYSVIIIDEAHERSVNTDILIGMLSRIVPLRAKlylqdqtvkpLKLVIM 166

                        170
                 ....*....|....*...
gi 17507503  335 SATIE-----GNMQLFSN 347
Cdd:cd17982  167 SATLRvedftENKLLFPR 184
DEAH_box_HrpA TIGR01967
RNA helicase HrpA; This model represents HrpA, one of two related but uncharacterized DEAH-box ...
 180-416 3.63e-40

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: 163.02  E-value: 3.63e-40
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    180 SLPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHenNKHVRVMVTQPRRIAAISIAERVARERGEPIGRT 259
Cdd:TIGR01967   65 NLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGR--GSHGLIGHTQPRRLAARTVAQRIAEELGTPLGEK 142

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    260 VGYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSATIE 339
Cdd:TIGR01967  143 VGYKVRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDLKIIITSATID 222

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    340 gnMQLFSNYFENhsMDVIRIESRAFDVKVFY--LDQILAMTGYQPPESkAFFSTAEYEEEDWKDEIEAV--EREEKDKAK 415
Cdd:TIGR01967  223 --PERFSRHFNN--APIIEVSGRTYPVEVRYrpLVEEQEDDDLDQLEA-ILDAVDELFAEGPGDILIFLpgEREIRDAAE 297


                   .
gi 17507503    416 Q 416
Cdd:TIGR01967  298 I 298
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
 630-992 4.26e-39

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 159.46  E-value: 4.26e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   630 LLDQVIQYLADSPvfGTILVFLPGYEDIQQMLKAIdcwknSLKNMKNVIVLPLHSQMTSINHGDIFKsvPKDTRKIILAT 709
Cdd:PRK11131  274 IFDAVDELGREGP--GDILIFMSGEREIRDTADAL-----NKLNLRHTEILPLYARLSNSEQNRVFQ--SHSGRRIVLAT 344

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   710 NIAEASITIEDVIFVVDTGKVKEKSFDHEAKLSTLTVKPIARSNADQRSGRAGRVANGYCIRLYTEQEYNSMPETQIAEM 789
Cdd:PRK11131  345 NVAETSLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVSEGICIRLYSEDDFLSRPEFTDPEI 424

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   790 KRAAIYDVTLhaKLFAPKTLKISEFlslaP--EPPEKESILQAITFLEQIGAFYTpikiydnsgneeglkndeeaenSEN 867
Cdd:PRK11131  425 LRTNLASVIL--QMTALGLGDIAAF----PfvEAPDKRNIQDGVRLLEELGAITT----------------------DEQ 476

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   868 PEDPELTDLGRLMARLPLDPQLSRMLLFGLALKCLTPIVNLVALLASREPYVLALseDRDLQSKMKFEMAQQDLSDHLLY 947
Cdd:PRK11131  477 ASAYKLTPLGRQLAQLPVDPRLARMVLEAQKHGCVREVMIITSALSIQDPRERPM--DKQQASDEKHRRFADKESDFLAF 554

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|...
gi 17507503   948 IRLCNEFcsknNSQQ-----NQF---CRDHFLNFSTMRMVQGTRRQlLRELVR 992
Cdd:PRK11131  555 VNLWNYL----QEQQkalssNQFrrlCRTDYLNYLRVREWQDIYTQ-LRQVVK 602
DEXHc_DHX40 cd17984
DEXH-box helicase domain of DEAH-box helicase 40; DEAH-box helicase 40 (DHX40) belongs to the ...
 181-351 1.13e-38

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: 142.69  E-value: 1.13e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHenNKHVRVMVTQPRRIAAISIAERVARERGEPIGRTV 260
Cdd:cd17984    1 LPIQKQRKKLVQAVRDNSFLIVTGNTGSGKTTQLPKYLYEAGF--SQHGMIGVTQPRRVAAISVAQRVAEEMKCTLGSKV 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  261 GYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRP-----DLKVILMS 335
Cdd:cd17984   79 GYQVRFDDCSSKETAIKYMTDGCLLRHILADPNLTKYSVIILDEAHERSLTTDILFGLLKKLFQEKSpnrkeHLKVVVMS 158

                        170
                 ....*....|....*.
gi 17507503  336 ATIEgnMQLFSNYFEN 351
Cdd:cd17984  159 ATLE--LAKLSAFFGN 172
PRK11664 PRK11664
ATP-dependent RNA helicase HrpB; Provisional
 179-917 2.67e-38

ATP-dependent RNA helicase HrpB; Provisional


Pssm-ID: 236950 [Multi-domain]  Cd Length: 812  Bit Score: 155.47  E-value: 2.67e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   179 NSLPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILdeaHENNKHVRVMVTQPRRIAAISIAERVARERGEPIGR 258
Cdd:PRK11664    2 SSLPVAAVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLL---QHGGINGKIIMLEPRRLAARNVAQRLAEQLGEKPGE 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   259 TVGYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDY---LLIALRECLkmRPDLKVILMS 335
Cdd:PRK11664   79 TVGYRMRAESKVGPNTRLEVVTEGILTRMIQRDPELSGVGLVILDEFHERSLQADLalaLLLDVQQGL--RDDLKLLIMS 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   336 ATIegnmqlfsnyfENHSM-----DVIRIES--RAFDVKvfyldqilamTGYQPPESKAFFSTAeyeeedwkdeieaver 408
Cdd:PRK11664  157 ATL-----------DNDRLqqllpDAPVIVSegRSFPVE----------RRYQPLPAHQRFDEA---------------- 199

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   409 eekdkakqraadsslstlskpvtkMAANTKRnspieerewtsgpcstpdgdiideramrqymniignpdirpvitvefrp 488
Cdd:PRK11664  200 ------------------------VARATAE------------------------------------------------- 206

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   489 ttpnsvfindvkyttnpnqsaqaLLQQKrerclmprgpltftcenpasttksppsptptlgiSSGLAKFTPfgGFGEKQR 568
Cdd:PRK11664  207 -----------------------LLRQE----------------------------------SGSLLLFLP--GVGEIQR 227

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   569 ISTLLEkkfkeelktalpdrtvyyhpqmNDVVDKTDFSKLrfgekynlfYGSSSnnsvdyvlldqviqyLADspvfgtil 648
Cdd:PRK11664  228 VQEQLA----------------------SRVASDVLLCPL---------YGALS---------------LAE-------- 253

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   649 vflpgyediQQmlKAIdcwknslknmknvivLPlhsqmtsinhgdifksVPKDTRKIILATNIAEASITIEDVIFVVDTG 728
Cdd:PRK11664  254 ---------QQ--KAI---------------LP----------------APAGRRKVVLATNIAETSLTIEGIRLVVDSG 291

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   729 KVKEKSFDHEAKLSTLTVKPIARSNADQRSGRAGRVANGYCIRLYTEQEYNSMPETQIAEMkraaiydvtLHAKLFA--- 805
Cdd:PRK11664  292 LERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRLEPGICLHLYSKEQAERAAAQSEPEI---------LHSDLSGlll 362

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   806 ---------PKTLKiseFLSLAPEPpekeSILQAITFLEQIGAFytpikiyDNSGneeglkndeeaensenpedpELTDL 876
Cdd:PRK11664  363 ellqwgchdPAQLS---WLDQPPAA----ALAAAKRLLQQLGAL-------DGQG--------------------RLTAR 408

                         730       740       750       760
                  ....*....|....*....|....*....|....*....|...
gi 17507503   877 GRLMARLPLDPQLSRMLLFG--LALKCLTPIVNLVALLasREP 917
Cdd:PRK11664  409 GRKMAALGNDPRLAAMLVAAkeDDEAALATAAKLAAIL--EEP 449
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
 180-370 6.09e-38

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 155.60  E-value: 6.09e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   180 SLPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILdeahENNKHVRVMV--TQPRRIAAISIAERVARERGEPIG 257
Cdd:PRK11131   72 NLPVSQKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICL----ELGRGVKGLIghTQPRRLAARTVANRIAEELETELG 147

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   258 RTVGYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSAT 337
Cdd:PRK11131  148 GCVGYKVRFNDQVSDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFILGYLKELLPRRPDLKVIITSAT 227

                         170       180       190
                  ....*....|....*....|....*....|...
gi 17507503   338 IEgnMQLFSNYFENhsMDVIRIESRAFDVKVFY 370
Cdd:PRK11131  228 ID--PERFSRHFNN--APIIEVSGRTYPVEVRY 256
DEAH_box_HrpB TIGR01970
ATP-dependent helicase HrpB; This model represents HrpB, one of two related but ...
 181-371 1.11e-35

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: 147.22  E-value: 1.11e-35
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    181 LPASKYCDQVLKSISSCNVVIISGGTGCGKTTQVPQFILDEAHENNKhvrVMVTQPRRIAAISIAERVARERGEPIGRTV 260
Cdd:TIGR01970    1 LPIHAVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPGIGGK---IIMLEPRRLAARSAAQRLASQLGEAVGQTV 77

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    261 GYQVRLDSRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDY-LLIALRECLKMRPDLKVILMSATIE 339
Cdd:TIGR01970   78 GYRVRGENKVSRRTRLEVVTEGILTRMIQDDPELDGVGALIFDEFHERSLDADLgLALALDVQSSLREDLKILAMSATLD 157

                          170       180       190
                   ....*....|....*....|....*....|..
gi 17507503    340 GnmQLFSNYFENHSmdVIRIESRAFDVKVFYL 371
Cdd:TIGR01970  158 G--ERLSSLLPDAP--VVESEGRSFPVEIRYL 185
DEXDc smart00487
DEAD-like helicases superfamily;
189-369 2.45e-28

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 113.74  E-value: 2.45e-28
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503     189 QVLKSISSCN-VVIISGGTGCGKTTQVPQFILDEAHENnKHVRVMVTQPRRIAAISIAERVARERGEPIGRTVGYQVRLD 267
Cdd:smart00487   15 EAIEALLSGLrDVILAAPTGSGKTLAALLPALEALKRG-KGGRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDS 93

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503     268 SR------RSDDTVLTYCTTGVLLRMLTSDPVA-SGITHIVMDEIHEReINTDYLLIALRECLKMRPDLKVILMSATIEG 340
Cdd:smart00487   94 KReqlrklESGKTDILVTTPGRLLDLLENDKLSlSNVDLVILDEAHRL-LDGGFGDQLEKLLKLLPKNVQLLLLSATPPE 172

                           170       180
                    ....*....|....*....|....*....
gi 17507503     341 NMQLFSNYFENHSMDVIRIESRAFDVKVF 369
Cdd:smart00487  173 EIENLLELFLNDPVFIDVGFTPLEPIEQF 201
DEXHc_DHX32 cd17977
DEXH-box helicase domain of DEAH-box helicase 32; DEAH-box helicase 32 (DHX32) belongs to the ...
 191-336 3.45e-28

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: 112.61  E-value: 3.45e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  191 LKSISSCNVVIISGGTGCGKTTQVPQFILD---EAHEnnKHVRVMVTQPRRIAAISIAERVARERGEPIGRTVGYQVRLD 267
Cdd:cd17977   11 MESLAHNQIVIVSGDAKTGKSSQIPQWCAEyclSAHY--QHGVVVCTQVHKQTAVWLALRVADEMDVNIGHEVGYVIPFE 88

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 17507503  268 SRRSDDTVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSA 336
Cdd:cd17977   89 NCCTNETILRYCTDDMLLREMMSDPLLESYGVIILDDAHERTVSTDVLLGLLKDVLLSRPELKLVIITC 157
DEXQc_DQX1 cd17986
DEXQ-box helicase domain of DEAQ-box RNA dependent ATPase 1; DEAQ-box RNA dependent ATPase 1 ...
 195-336 6.71e-26

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: 105.75  E-value: 6.71e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  195 SSCNVVIISGGTGCGKTTQVPQFILDEA-HENNKHVRVMVTQPRRIAAISIAERVARERGEPIGRTVGYQVRLDSRRSDD 273
Cdd:cd17986   16 SPSGIVLVSGEPGSGKSTQVPQWCAEFAlSRGFQKGQVTVTQPHPLAARSLALRVADEMDLNLGHEVGYSIPQEDCTGPN 95

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 17507503  274 TVLTYCTTGVLLRMLTSDPVASGITHIVMDEIHEREINTDYLLIALRECLKMRPDLKVILMSA 336
Cdd:cd17986   96 TILRFCWDRLLLQEMTSTPLLGAWGVVVLDEAQERSVASDSLLGLLKDVRLQRPELRVVVVTS 158
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 200-337 4.33e-20

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: 88.23  E-value: 4.33e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  200 VIISGGTGCGKTTQVPQFILDEAheNNKHVRVMVTQPRRIAAISIAERVARERGEPIgrTVGYQVR------LDSRRSDD 273
Cdd:cd00046    4 VLITAPTGSGKTLAALLAALLLL--LKKGKKVLVLVPTKALALQTAERLRELFGPGI--RVAVLVGgssaeeREKNKLGD 79

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 17507503  274 TVLTYCTTGVLLRMLTSD--PVASGITHIVMDEIHEREINTDYLLI-ALRECLKMRPDLKVILMSAT 337
Cdd:cd00046   80 ADIIIATPDMLLNLLLREdrLFLKDLKLIIVDEAHALLIDSRGALIlDLAVRKAGLKNAQVILLSAT 146
HA2 pfam04408
Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in ...
 869-947 1.49e-18

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: 82.29  E-value: 1.49e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    869 EDPELTDLGRLMARLPLDPQLSRMLLFGLALKCLTPIVNLVALLASREPYVLALSEDRDLQSKMKFEMA----------- 937
Cdd:pfam04408   13 EDGELTPLGRKMAELPLDPRLAKMLLAAAELGCLDEVLTIVAALSVRDPFVQPNFLDPRSAAKAARRRRraadekarakf 92

                           90
                   ....*....|..
gi 17507503    938 --QQDLSDHLLY 947
Cdd:pfam04408   93 arLDLEGDHLTL 104
R3H smart00393
Putative single-stranded nucleic acids-binding domain;
21-100 2.76e-17

Putative single-stranded nucleic acids-binding domain;


Pssm-ID: 214647  Cd Length: 79  Bit Score: 77.73  E-value: 2.76e-17
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503      21 NGFDASRVLPRGTDNDTRKEYRRVANEIIRsFLKSGQKNTTLEPMGRDQRKVMHEVALLNEMTTKSHGREPDRYMILSKR 100
Cdd:smart00393    1 ADFLPVTLDALSYRPRRREELIELELEIAR-FVKSTKESVELPPMNSYERKIVHELAEKYGLESESFGEGPKRRVVISKK 79
HA2 smart00847
Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino ...
 869-948 7.14e-16

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: 73.84  E-value: 7.14e-16
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503     869 EDPELTDLGRLMARLPLDPQLSRMLLFGLALKCLTPIVNLVALLASREPYVLALSEDRDlQSKMKFemaQQDLSDHLLYI 948
Cdd:smart00847    7 DDGRLTPLGRKMAELPLDPRLAKMLLAAAEFGCLDEILTIVAMLSVGDPRPKEKREDAD-AARRRF---ADPESDHLTLL 82
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 189-345 3.91e-14

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: 71.50  E-value: 3.91e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    189 QVLKSISSCNVVIISGGTGCGKTT--QVPqfILDEAHENNKHVRVMVTQPRRIAAISIAERvARERGEPIGRTVGYQVRL 266
Cdd:pfam00270    6 EAIPAILEGRDVLVQAPTGSGKTLafLLP--ALEALDKLDNGPQALVLAPTRELAEQIYEE-LKKLGKGLGLKVASLLGG 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    267 DSRRSDDTVL-----TYCTTGVLLRMLTSDPVASGITHIVMDEIHerEINTDYLLIALRECLK-MRPDLKVILMSATIEG 340
Cdd:pfam00270   83 DSRKEQLEKLkgpdiLVGTPGRLLDLLQERKLLKNLKLLVLDEAH--RLLDMGFGPDLEEILRrLPKKRQILLLSATLPR 160


                   ....*
gi 17507503    341 NMQLF 345
Cdd:pfam00270  161 NLEDL 165
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 1023-1116 1.96e-11

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: 61.11  E-value: 1.96e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   1023 IQAVIAAGCYPFIGVSASESNLKKvQTFNDKPAFLHPSSMVkkqivkmgKSEKSPRVEYVAFQEMcqMPSDRsLSMKTVT 1102
Cdd:pfam07717    1 LRAALAAGLYPNVARRDPKGKGYT-TLSDNQRVFIHPSSVL--------FNEKTFPPEWVVYQEL--VETTK-VYIRTVT 68

                           90
                   ....*....|....
gi 17507503   1103 VIPSMTALLFTGPI 1116
Cdd:pfam07717   69 AISPEWLLLFAPHI 82
HELICc smart00490
helicase superfamily c-terminal domain;
673-763 1.23e-10

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 59.15  E-value: 1.23e-10
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503     673 NMKNVIVLPLHSQMTSINHGDIFKSVPKDTRKIILATNIAEASITIEDVIFVVDTGkvkeksfdheaklstltvKPIARS 752
Cdd:smart00490    8 KELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYD------------------LPWSPA 69

                            90
                    ....*....|.
gi 17507503     753 NADQRSGRAGR 763
Cdd:smart00490   70 SYIQRIGRAGR 80
R3H pfam01424
R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most ...
 42-99 1.60e-10

R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to be binding ssDNA.


Pssm-ID: 460206  Cd Length: 60  Bit Score: 57.89  E-value: 1.60e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 17507503     42 RRVANEIIRsFLKSGQKNTTLEPMGRDQRKVMHEVALLNEMTTKSHGREPDRYMILSK 99
Cdd:pfam01424    4 EQLAEKLAE-FVKDTGKSLELPPMSSYERRIIHELAQKYGLESESEGEEPNRRVVVYK 60
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 631-764 3.98e-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: 3.98e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503    631 LDQVIQYLADSPVfGTILVFLPGYEDIQqmlkaidcwKNSLKNMKNVIVLPLHSQMTSINHGDIFKSVPKDTRKIILATN 710
Cdd:pfam00271    3 LEALLELLKKERG-GKVLIFSQTKKTLE---------AELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATD 72

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....
gi 17507503    711 IAEASITIEDVIFVVDTGKVKEksfdheaklstltvkpiaRSNADQRSGRAGRV 764
Cdd:pfam00271   73 VAERGLDLPDVDLVINYDLPWN------------------PASYIQRIGRAGRA 108
DEXHc_viral_Ns3 cd17931
DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional ...
 206-345 1.51e-08

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: 55.25  E-value: 1.51e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  206 TGCGKTTQVPQFILDEAHenNKHVRVMVTQPRRIAAISIAERVareRGEPIGRTVGYQVRLDSRRsddTVLTYCTTGVLL 285
Cdd:cd17931   10 PGAGKTTRVLPQIIREAI--KKRLRTLVLAPTRVVAAEMYEAL---RGLPIRYRTGAVKEEHGGN---EIVDYMCHGTFT 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 17507503  286 RMLTSDPVASGITHIVMDEIHereiNTDYLLIALRECLKMR---PDLKVILMSATIEGNMQLF 345
Cdd:cd17931   82 CRLLSPKRVPNYNLIIMDEAH----FTDPASIAARGYIHTRvemGEAAVIFMTATPPGTVTPF 140
R3H cd02325
R3H domain. The name of the R3H domain comes from the characteristic spacing of the most ...
 42-99 6.75e-08

R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich repeats, ring-type zinc fingers, and KH domains. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.


Pssm-ID: 100064  Cd Length: 59  Bit Score: 50.31  E-value: 6.75e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 17507503   42 RRVANEIIRSFLKSGQKNT-TLEPMGRDQRKVMHEVALLNEMTTKSHGREPDRYMILSK 99
Cdd:cd02325    1 REEREEELEAFAKDAAGKSlELPPMNSYERKLIHDLAEYYGLKSESEGEGPNRRVVITK 59
PHA02653 PHA02653
RNA helicase NPH-II; Provisional
 670-774 4.63e-07

RNA helicase NPH-II; Provisional


Pssm-ID: 177443 [Multi-domain]  Cd Length: 675  Bit Score: 54.60  E-value: 4.63e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503   670 SLKNMKNVIVlplHSQMTSINhgDIFKSV-PKDTRKIILATNIAEASITIEDVIFVVDTGKVKEKS-FDHEAKLstltvk 747
Cdd:PHA02653  418 RLPIYDFYII---HGKVPNID--EILEKVySSKNPSIIISTPYLESSVTIRNATHVYDTGRVYVPEpFGGKEMF------ 486

                          90       100
                  ....*....|....*....|....*..
gi 17507503   748 pIARSNADQRSGRAGRVANGYCIRLYT 774
Cdd:PHA02653  487 -ISKSMRTQRKGRVGRVSPGTYVYFYD 512
R3H_jag cd02644
R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with ...
 38-100 3.05e-05

R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.


Pssm-ID: 100073  Cd Length: 67  Bit Score: 43.23  E-value: 3.05e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 17507503   38 RKEYRRVANEIIRSFLKSGqKNTTLEPMGRDQRKVMHEValLNEM---TTKSHGREPDRYMILSKR 100
Cdd:cd02644    5 EETLIRLAERAAEKVRRTG-KPVKLEPMNAYERRIIHDA--LANDedvETESEGEGPYRRVVISPK 67
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 200-360 3.23e-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: 43.02  E-value: 3.23e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  200 VIISGGTGCGKTTQVPQFILDEAHENNKhvRVMVTQPRRiaAIsIAERVA--RERGEPIGRTVGYQ---VRLDSRRSDDT 274
Cdd:cd17921   20 VLVSAPTSSGKTLIAELAILRALATSGG--KAVYIAPTR--AL-VNQKEAdlRERFGPLGKNVGLLtgdPSVNKLLLAEA 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17507503  275 VLTYCTTGVLLRMLTSDPVASG--ITHIVMDEIH-----EREINTDYLLIALReclKMRPDLKVILMSATIeGNMQLFSN 347
Cdd:cd17921   95 DILVATPEKLDLLLRNGGERLIqdVRLVVVDEAHligdgERGVVLELLLSRLL---RINKNARFVGLSATL-PNAEDLAE 170

                        170
                 ....*....|...
gi 17507503  348 YFEnhSMDVIRIE 360
Cdd:cd17921  171 WLG--VEDLIRFD 181
DEXSc_RecD-like cd17933
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ...
 189-251 3.39e-04

DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD 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: 350691 [Multi-domain]  Cd Length: 155  Bit Score: 42.54  E-value: 3.39e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 17507503  189 QVLKSISSCNVVIISGGTGCGKTTQVpQFILDEAHENNKhvRVMVTQPRRIAAISIAERVARE 251
Cdd:cd17933    4 AAVRLVLRNRVSVLTGGAGTGKTTTL-KALLAALEAEGK--RVVLAAPTGKAAKRLSESTGIE 63
Jag COG1847
Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General ...
 38-100 4.27e-04

Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General function prediction only];


Pssm-ID: 441452 [Multi-domain]  Cd Length: 143  Bit Score: 42.02  E-value: 4.27e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 17507503   38 RKEYRRVANEIIRSFLKSGqKNTTLEPMGRDQRKVMHEvALLNEM--TTKSHGREPDRYMILSKR 100
Cdd:COG1847   80 EEELEELARRAAEKVKRTG-KPVELEPMSPYERRIIHD-ALADDPgvETESEGEEPYRRVVISPK 142
R3H_G-patch cd02646
R3H domain of a group of fungal and plant proteins with unknown function, who also contain a ...
 46-99 6.20e-03

R3H domain of a group of fungal and plant proteins with unknown function, who also contain a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the R3H domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.


Pssm-ID: 100075  Cd Length: 58  Bit Score: 36.39  E-value: 6.20e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 17507503   46 NEIIRSFLKSGQKNTTLEPMGRDQRKVMHEVALLNEMTTKSHGREPDRYMILSK 99
Cdd:cd02646    5 KDEIEAFLLDSRDSLSFPPMDKHGRKTIHKLANCYNLKSKSRGKGKKRFVTVTK 58
 
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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