NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|557357749|ref|NP_001273428|]
View 

ATP-dependent DNA helicase PIF1 isoform c [Homo sapiens]

Protein Classification

DEAD-like_helicase_N and SF1_C_RecD domain-containing protein( domain architecture ID 13718164)

DEAD-like_helicase_N and SF1_C_RecD domain-containing protein

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

Name Accession Description Interval E-value
PIF1 pfam05970
PIF1-like helicase; This family includes homologs of the PIF1 helicase, which inhibits ...
154-451 1.43e-123

PIF1-like helicase; This family includes homologs of the PIF1 helicase, which inhibits telomerase activity and is cell cycle regulated. This family includes a large number of largely uncharacterized plant proteins. This family includes a P-loop motif that is involved in nucleotide binding.


:

Pssm-ID: 428699 [Multi-domain]  Cd Length: 361  Bit Score: 368.63  E-value: 1.43e-123
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  154 LSEEQAAVLRAVL------KGQSIFFTGSAGTGKSYLLKRILGSLPPTG--TVATASTGVAACHI-GGTTLHAFAGIGSG 224
Cdd:pfam05970   1 LNDEQKKVFDAIIesvinnKGGVFFVYGYGGTGKTFLWKAIITSLRSEGkiVLAVASSGVAALLLpGGRTAHSRFGIPLD 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  225 QAPLAQCvALAQRPGVRQGWLNCQRLVIDEISMVEADLFDKLEAVARAVRQQ--NKPFGGIQLIICGDFLQLPPVT-KGS 301
Cdd:pfam05970  81 IDELSTC-KIKRGSKLAELLEKTSLIVWDEAPMTHRHCFEALDRTLRDILSEtdDKPFGGKTVVLGGDFRQILPVIpKGS 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  302 QPPRFCF---QSKSWKRCVpvTLELTKVWRQAD-----------QTFISLLQAVRLGRCSDEVTRQ-------------- 353
Cdd:pfam05970 160 RPEIVNAsitNSYLWKHVK--VLELTKNMRLLAdsldqteakelQDFSDWLLAIGDGKINDENEREqlidipidillntg 237
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  354 ---LQATASHKVGRdgIVA-----------TRLCTHQDDVALTNERRLQELPGKVHRFEAMDS--------------NPE 405
Cdd:pfam05970 238 gdpIEAIVSEVYPD--ILQnstdpnyleerAILCPTNEDVDEINNYRLSQLPGEEKEYLSSDSisksdndseidalyPTE 315
                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*.
gi 557357749  406 LASTLDAQCPVSQLLQLKLGAQVMLVKNLSVSRGLVNGARGVVVGF 451
Cdd:pfam05970 316 FLNSLNANGLPNHVLKLKVGAPVMLLRNLDQSRGLCNGTRLIVTQL 361
SF1_C_RecD cd18809
C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11. ...
495-540 2.80e-16

C-terminal helicase domain of RecD family helicases; 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 family helicases are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 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: 350196 [Multi-domain]  Cd Length: 80  Bit Score: 73.75  E-value: 2.80e-16
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 557357749 495 LAWAMSIHKSQGMTLDCVEISLGRV---FASGQAYVALSRARSLQGLRV 540
Cdd:cd18809   32 QAYAMTIHKSQGSEFDRVIVVLPTShpmLSRGLLYTALTRARKLLTLVG 80
PRK13889 super family cl36309
conjugal transfer relaxase TraA; Provisional
434-587 2.40e-04

conjugal transfer relaxase TraA; Provisional


The actual alignment was detected with superfamily member PRK13889:

Pssm-ID: 237546 [Multi-domain]  Cd Length: 988  Bit Score: 44.30  E-value: 2.40e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 434 LSVSRGLVNGARGVVVGFEAEGRGLPQVRFLCGVTEVIHADRWTVQATGGQLLS---RQQLPLQLAWAMSIHKSQGMTLD 510
Cdd:PRK13889 592 VTVERGERSFASGDRVMFLQNERGLGVKNGTLGTIEQVSAQSMSVRLDDGRSVAfdlKDYDRIDHGYAATIHKAQGMTVD 671
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 511 CVEISLGRVFASGQAYVALSRARslqglrvldfDPMAvrcdprvLHF----YATLRR-GRSLSLESPDDdeAASDQENMD 585
Cdd:PRK13889 672 RTHVLATPGMDAHSSYVALSRHR----------DGVD-------LHYgrddFADRDRlVRTLSRDRAKD--MASDYERAD 732

                 ..
gi 557357749 586 PI 587
Cdd:PRK13889 733 PA 734
 
Name Accession Description Interval E-value
PIF1 pfam05970
PIF1-like helicase; This family includes homologs of the PIF1 helicase, which inhibits ...
154-451 1.43e-123

PIF1-like helicase; This family includes homologs of the PIF1 helicase, which inhibits telomerase activity and is cell cycle regulated. This family includes a large number of largely uncharacterized plant proteins. This family includes a P-loop motif that is involved in nucleotide binding.


Pssm-ID: 428699 [Multi-domain]  Cd Length: 361  Bit Score: 368.63  E-value: 1.43e-123
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  154 LSEEQAAVLRAVL------KGQSIFFTGSAGTGKSYLLKRILGSLPPTG--TVATASTGVAACHI-GGTTLHAFAGIGSG 224
Cdd:pfam05970   1 LNDEQKKVFDAIIesvinnKGGVFFVYGYGGTGKTFLWKAIITSLRSEGkiVLAVASSGVAALLLpGGRTAHSRFGIPLD 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  225 QAPLAQCvALAQRPGVRQGWLNCQRLVIDEISMVEADLFDKLEAVARAVRQQ--NKPFGGIQLIICGDFLQLPPVT-KGS 301
Cdd:pfam05970  81 IDELSTC-KIKRGSKLAELLEKTSLIVWDEAPMTHRHCFEALDRTLRDILSEtdDKPFGGKTVVLGGDFRQILPVIpKGS 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  302 QPPRFCF---QSKSWKRCVpvTLELTKVWRQAD-----------QTFISLLQAVRLGRCSDEVTRQ-------------- 353
Cdd:pfam05970 160 RPEIVNAsitNSYLWKHVK--VLELTKNMRLLAdsldqteakelQDFSDWLLAIGDGKINDENEREqlidipidillntg 237
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  354 ---LQATASHKVGRdgIVA-----------TRLCTHQDDVALTNERRLQELPGKVHRFEAMDS--------------NPE 405
Cdd:pfam05970 238 gdpIEAIVSEVYPD--ILQnstdpnyleerAILCPTNEDVDEINNYRLSQLPGEEKEYLSSDSisksdndseidalyPTE 315
                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*.
gi 557357749  406 LASTLDAQCPVSQLLQLKLGAQVMLVKNLSVSRGLVNGARGVVVGF 451
Cdd:pfam05970 316 FLNSLNANGLPNHVLKLKVGAPVMLLRNLDQSRGLCNGTRLIVTQL 361
DEXSc_Pif1_like cd18037
DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like ...
157-328 3.93e-90

DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like helicases involved in maintaining genome stability through unwinding double-stranded DNAs (dsDNAs), DNA/RNA hybrids, and G quadruplex (G4) structures. The members of Pif1 helicase subfamily studied so far all appear to contribute to telomere maintenance. Pif1 is a member of the DEAD-like helicases superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350795 [Multi-domain]  Cd Length: 183  Bit Score: 275.67  E-value: 3.93e-90
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 157 EQAAVLRAVLKGQSIFFTGSAGTGKSYLLKRILGSLP--PTGTVATASTGVAACHIGGTTLHAFAGIGSGQAPLAQCVA- 233
Cdd:cd18037    1 EQRRVLDLVLDGKNVFFTGSAGTGKSYLLRRIIRALPsrPKRVAVTASTGIAACNIGGTTLHSFAGIGLGSEPAEDLLEr 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 234 LAQRPGVRQGWLNCQRLVIDEISMVEADLFDKLEAVARAVRQQNKPFGGIQLIICGDFLQLPPVTKGSQPPRF------- 306
Cdd:cd18037   81 VKRSPYLVQRWRKCDVLIIDEISMLDADLFDKLDRVAREVRGSDKPFGGIQLILCGDFLQLPPVTKNSERQAFffrgdqq 160
                        170       180
                 ....*....|....*....|...
gi 557357749 307 -CFQSKSWKRCVPVTLELTKVWR 328
Cdd:cd18037  161 fCFEAKSWERCIFLTVELTKVFR 183
RecD COG0507
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...
148-553 1.86e-51

ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];


Pssm-ID: 440273 [Multi-domain]  Cd Length: 514  Bit Score: 184.79  E-value: 1.86e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 148 PSTKPQLSEEQAAVLRAVLKGQSIFF-TGSAGTGKSYLLKRILGSLPPTG--TVATASTGVAA------CHIGGTTLHAF 218
Cdd:COG0507  119 PRAGITLSDEQREAVALALTTRRVSVlTGGAGTGKTTTLRALLAALEALGlrVALAAPTGKAAkrlsesTGIEARTIHRL 198
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 219 AGIGSGQAPLaqcvalaqRPGVRQGWLNCQRLVIDEISMVEADLFDKLeavARAVRQqnkpfGGIQLIICGDFLQLPPVT 298
Cdd:COG0507  199 LGLRPDSGRF--------RHNRDNPLTPADLLVVDEASMVDTRLMAAL---LEALPR-----AGARLILVGDPDQLPSVG 262
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 299 KGSqpprfCFQSKSWKRCVPVTlELTKVWRQADQT-FISLLQAVRLGRCS------------------DEVTRQLQA--T 357
Cdd:COG0507  263 AGA-----VLRDLIESGTVPVV-ELTEVYRQADDSrIIELAHAIREGDAPealnaryadvvfveaedaEEAAEAIVElyA 336
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 358 ASHKVGRDGIVatrLCTHQDDVALTNERRLQELPGkvhrfeamdsnpelASTLDAQCPVSQLLQLKLGAQVMLVKNlSVS 437
Cdd:COG0507  337 DRPAGGEDIQV---LAPTNAGVDALNQAIREALNP--------------AGELERELAEDGELELYVGDRVMFTRN-DYD 398
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 438 RGLVNGARGVVVGFEAEGRGLpQVRFlcgvtevihaDRWTVQAtggqlLSRQQLP-LQLAWAMSIHKSQGMTLDCVEISL 516
Cdd:COG0507  399 LGVFNGDIGTVLSIDEDEGRL-TVRF----------DGREIVT-----YDPSELDqLELAYAITVHKSQGSTFDRVILVL 462
                        410       420       430       440
                 ....*....|....*....|....*....|....*....|...
gi 557357749 517 G----RVFASGQAYVALSRARSLQGLrVLD--FDPMAVRCDPR 553
Cdd:COG0507  463 PsehsPLLSRELLYTALTRARELLTL-VGDrdALARAVRRDTA 504
SF1_C_RecD cd18809
C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11. ...
495-540 2.80e-16

C-terminal helicase domain of RecD family helicases; 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 family helicases are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 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: 350196 [Multi-domain]  Cd Length: 80  Bit Score: 73.75  E-value: 2.80e-16
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 557357749 495 LAWAMSIHKSQGMTLDCVEISLGRV---FASGQAYVALSRARSLQGLRV 540
Cdd:cd18809   32 QAYAMTIHKSQGSEFDRVIVVLPTShpmLSRGLLYTALTRARKLLTLVG 80
recD TIGR01447
exodeoxyribonuclease V, alpha subunit; This family describes the exodeoxyribonuclease V alpha ...
134-568 1.11e-14

exodeoxyribonuclease V, alpha subunit; This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273631 [Multi-domain]  Cd Length: 582  Bit Score: 77.11  E-value: 1.11e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  134 EAPRWPLPVKRLSLPSTKPQLSEEQAAVLRAVLKGQSIFFTGSAGTGKSYLLKRILGSL---------------PPTGTV 198
Cdd:TIGR01447 125 EARKRTAPSAILENLFPLLNEQNWRKTAVALALKSNFSLITGGPGTGKTTTVARLLLALvkqspkqgklrialaAPTGKA 204
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  199 AT---------------ASTGVAACHIGGTTLHAFAGIGSGQAPLAQCvalaqrpgvRQGWLNCQRLVIDEISMVEADLF 263
Cdd:TIGR01447 205 AArlaeslrkavknlaaAEALIAALPSEAVTIHRLLGIKPDTKRFRHH---------ERNPLPLDVLVVDEASMVDLPLM 275
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  264 DKLeavARAVRqqnkpfGGIQLIICGDFLQLPPVTKGSQPPRFCFQSKSWKRCVPVTLELTKVWRQ---ADQTF------ 334
Cdd:TIGR01447 276 AKL---LKALP------PNTKLILLGDKNQLPSVEAGAVLGDLCELASIGKSILYALCKKINSKTRnplSDNVCflktsh 346
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  335 -------ISLL-QAVRLGRC----SDEVTRQLQATASHKVGRDGIVATRlcthqdDVALTNERRLQELpgkvHRFEAMDS 402
Cdd:TIGR01447 347 rfgkdsgIGQLaKAINSGDIeavlNNLRSGQLIEFEFLNSKEDAIERLK------NLYVKYRTFLQKL----AALSDAKE 416
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  403 NPELASTLDAQCP--------------VSQLLQLK----------LGAQVMLVKNlSVSRGLVNGARGVVvgFEAEGRGL 458
Cdd:TIGR01447 417 ILETFDRLRLLTAlrdgpfgvlglnrrIEQELQEKyfdpdeegwyIGRPIMVTEN-DYTLGLFNGDIGVL--LRDPDGIL 493
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  459 PQVRFLCGVTEVIHADRWTVQATggqllsrqqlplqlAWAMSIHKSQGMTLDCVEISL----GRVFASGQAYVALSRARs 534
Cdd:TIGR01447 494 TVWFHFADGSKAVLPSRLPNYET--------------AFAMTVHKSQGSEFDHVILILpngnSPVLTRELLYTGITRAK- 558
                         490       500       510
                  ....*....|....*....|....*....|....
gi 557357749  535 lqglrvldfDPMAVRCDPRVLHfYATLRRGRSLS 568
Cdd:TIGR01447 559 ---------DQLSVWSDKETLN-AAIKRKNKRLS 582
PRK13889 PRK13889
conjugal transfer relaxase TraA; Provisional
434-587 2.40e-04

conjugal transfer relaxase TraA; Provisional


Pssm-ID: 237546 [Multi-domain]  Cd Length: 988  Bit Score: 44.30  E-value: 2.40e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 434 LSVSRGLVNGARGVVVGFEAEGRGLPQVRFLCGVTEVIHADRWTVQATGGQLLS---RQQLPLQLAWAMSIHKSQGMTLD 510
Cdd:PRK13889 592 VTVERGERSFASGDRVMFLQNERGLGVKNGTLGTIEQVSAQSMSVRLDDGRSVAfdlKDYDRIDHGYAATIHKAQGMTVD 671
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 511 CVEISLGRVFASGQAYVALSRARslqglrvldfDPMAvrcdprvLHF----YATLRR-GRSLSLESPDDdeAASDQENMD 585
Cdd:PRK13889 672 RTHVLATPGMDAHSSYVALSRHR----------DGVD-------LHYgrddFADRDRlVRTLSRDRAKD--MASDYERAD 732

                 ..
gi 557357749 586 PI 587
Cdd:PRK13889 733 PA 734
PHA03311 PHA03311
helicase-primase subunit BBLF4; Provisional
498-546 3.42e-04

helicase-primase subunit BBLF4; Provisional


Pssm-ID: 223040  Cd Length: 782  Bit Score: 43.74  E-value: 3.42e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 557357749 498 AMSIHKSQGMTLDCVEISlgrvFASG------QAYVALSRARSLQGLRvLDFDPM 546
Cdd:PHA03311 706 AMTIAKSQGLSLDKVAIC----FGNHknlklsHVYVAMSRVTSSNFLV-MNLNPL 755
Herpes_Helicase pfam02689
Helicase; This family consists of Helicases from the Herpes viruses. Helicases are responsible ...
498-558 3.78e-04

Helicase; This family consists of Helicases from the Herpes viruses. Helicases are responsible for the unwinding of DNA and are essential for replication and completion of the viral life cycle.


Pssm-ID: 280797  Cd Length: 809  Bit Score: 43.55  E-value: 3.78e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 557357749  498 AMSIHKSQGMTLDCVEISLG--RVFASGQAYVALSRARSLQGLrVLDFDPMAVR---------------CDPRVLHFY 558
Cdd:pfam02689 733 AMTIAKSQGLSLDKVAICFGnhPNLKLSHVYVAMSRATDPNHL-VMNVNPLRLRyekdnpiskhivkalKNPNTLLVY 809
 
Name Accession Description Interval E-value
PIF1 pfam05970
PIF1-like helicase; This family includes homologs of the PIF1 helicase, which inhibits ...
154-451 1.43e-123

PIF1-like helicase; This family includes homologs of the PIF1 helicase, which inhibits telomerase activity and is cell cycle regulated. This family includes a large number of largely uncharacterized plant proteins. This family includes a P-loop motif that is involved in nucleotide binding.


Pssm-ID: 428699 [Multi-domain]  Cd Length: 361  Bit Score: 368.63  E-value: 1.43e-123
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  154 LSEEQAAVLRAVL------KGQSIFFTGSAGTGKSYLLKRILGSLPPTG--TVATASTGVAACHI-GGTTLHAFAGIGSG 224
Cdd:pfam05970   1 LNDEQKKVFDAIIesvinnKGGVFFVYGYGGTGKTFLWKAIITSLRSEGkiVLAVASSGVAALLLpGGRTAHSRFGIPLD 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  225 QAPLAQCvALAQRPGVRQGWLNCQRLVIDEISMVEADLFDKLEAVARAVRQQ--NKPFGGIQLIICGDFLQLPPVT-KGS 301
Cdd:pfam05970  81 IDELSTC-KIKRGSKLAELLEKTSLIVWDEAPMTHRHCFEALDRTLRDILSEtdDKPFGGKTVVLGGDFRQILPVIpKGS 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  302 QPPRFCF---QSKSWKRCVpvTLELTKVWRQAD-----------QTFISLLQAVRLGRCSDEVTRQ-------------- 353
Cdd:pfam05970 160 RPEIVNAsitNSYLWKHVK--VLELTKNMRLLAdsldqteakelQDFSDWLLAIGDGKINDENEREqlidipidillntg 237
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  354 ---LQATASHKVGRdgIVA-----------TRLCTHQDDVALTNERRLQELPGKVHRFEAMDS--------------NPE 405
Cdd:pfam05970 238 gdpIEAIVSEVYPD--ILQnstdpnyleerAILCPTNEDVDEINNYRLSQLPGEEKEYLSSDSisksdndseidalyPTE 315
                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*.
gi 557357749  406 LASTLDAQCPVSQLLQLKLGAQVMLVKNLSVSRGLVNGARGVVVGF 451
Cdd:pfam05970 316 FLNSLNANGLPNHVLKLKVGAPVMLLRNLDQSRGLCNGTRLIVTQL 361
DEXSc_Pif1_like cd18037
DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like ...
157-328 3.93e-90

DEAD-box helicase domain of Pif1; Pif1 and other members of this family are RecD-like helicases involved in maintaining genome stability through unwinding double-stranded DNAs (dsDNAs), DNA/RNA hybrids, and G quadruplex (G4) structures. The members of Pif1 helicase subfamily studied so far all appear to contribute to telomere maintenance. Pif1 is a member of the DEAD-like helicases superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350795 [Multi-domain]  Cd Length: 183  Bit Score: 275.67  E-value: 3.93e-90
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 157 EQAAVLRAVLKGQSIFFTGSAGTGKSYLLKRILGSLP--PTGTVATASTGVAACHIGGTTLHAFAGIGSGQAPLAQCVA- 233
Cdd:cd18037    1 EQRRVLDLVLDGKNVFFTGSAGTGKSYLLRRIIRALPsrPKRVAVTASTGIAACNIGGTTLHSFAGIGLGSEPAEDLLEr 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 234 LAQRPGVRQGWLNCQRLVIDEISMVEADLFDKLEAVARAVRQQNKPFGGIQLIICGDFLQLPPVTKGSQPPRF------- 306
Cdd:cd18037   81 VKRSPYLVQRWRKCDVLIIDEISMLDADLFDKLDRVAREVRGSDKPFGGIQLILCGDFLQLPPVTKNSERQAFffrgdqq 160
                        170       180
                 ....*....|....*....|...
gi 557357749 307 -CFQSKSWKRCVPVTLELTKVWR 328
Cdd:cd18037  161 fCFEAKSWERCIFLTVELTKVFR 183
RecD COG0507
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...
148-553 1.86e-51

ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];


Pssm-ID: 440273 [Multi-domain]  Cd Length: 514  Bit Score: 184.79  E-value: 1.86e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 148 PSTKPQLSEEQAAVLRAVLKGQSIFF-TGSAGTGKSYLLKRILGSLPPTG--TVATASTGVAA------CHIGGTTLHAF 218
Cdd:COG0507  119 PRAGITLSDEQREAVALALTTRRVSVlTGGAGTGKTTTLRALLAALEALGlrVALAAPTGKAAkrlsesTGIEARTIHRL 198
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 219 AGIGSGQAPLaqcvalaqRPGVRQGWLNCQRLVIDEISMVEADLFDKLeavARAVRQqnkpfGGIQLIICGDFLQLPPVT 298
Cdd:COG0507  199 LGLRPDSGRF--------RHNRDNPLTPADLLVVDEASMVDTRLMAAL---LEALPR-----AGARLILVGDPDQLPSVG 262
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 299 KGSqpprfCFQSKSWKRCVPVTlELTKVWRQADQT-FISLLQAVRLGRCS------------------DEVTRQLQA--T 357
Cdd:COG0507  263 AGA-----VLRDLIESGTVPVV-ELTEVYRQADDSrIIELAHAIREGDAPealnaryadvvfveaedaEEAAEAIVElyA 336
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 358 ASHKVGRDGIVatrLCTHQDDVALTNERRLQELPGkvhrfeamdsnpelASTLDAQCPVSQLLQLKLGAQVMLVKNlSVS 437
Cdd:COG0507  337 DRPAGGEDIQV---LAPTNAGVDALNQAIREALNP--------------AGELERELAEDGELELYVGDRVMFTRN-DYD 398
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 438 RGLVNGARGVVVGFEAEGRGLpQVRFlcgvtevihaDRWTVQAtggqlLSRQQLP-LQLAWAMSIHKSQGMTLDCVEISL 516
Cdd:COG0507  399 LGVFNGDIGTVLSIDEDEGRL-TVRF----------DGREIVT-----YDPSELDqLELAYAITVHKSQGSTFDRVILVL 462
                        410       420       430       440
                 ....*....|....*....|....*....|....*....|...
gi 557357749 517 G----RVFASGQAYVALSRARSLQGLrVLD--FDPMAVRCDPR 553
Cdd:COG0507  463 PsehsPLLSRELLYTALTRARELLTL-VGDrdALARAVRRDTA 504
DEXSc_RecD-like cd17933
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ...
157-327 6.39e-30

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: 114.96  E-value: 6.39e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 157 EQAAVLRAVLKGQSIFFTGSAGTGKSYLLKRILGSL--PPTGTVATASTGVAACHIG------GTTLHAFAGIGSGQAPL 228
Cdd:cd17933    1 EQKAAVRLVLRNRVSVLTGGAGTGKTTTLKALLAALeaEGKRVVLAAPTGKAAKRLSestgieASTIHRLLGINPGGGGF 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 229 AQCvalaqrpgvRQGWLNCQRLVIDEISMVEADLFDKLEAVARAvrqqnkpfgGIQLIICGDFLQLPPVTKGSqPPRFCF 308
Cdd:cd17933   81 YYN---------EENPLDADLLIVDEASMVDTRLMAALLSAIPA---------GARLILVGDPDQLPSVGAGN-VLRDLI 141
                        170
                 ....*....|....*....
gi 557357749 309 QSKSwkrcVPVTlELTKVW 327
Cdd:cd17933  142 ASKG----VPTV-ELTEVF 155
SF1_C_RecD cd18809
C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11. ...
495-540 2.80e-16

C-terminal helicase domain of RecD family helicases; 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 family helicases are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 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: 350196 [Multi-domain]  Cd Length: 80  Bit Score: 73.75  E-value: 2.80e-16
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 557357749 495 LAWAMSIHKSQGMTLDCVEISLGRV---FASGQAYVALSRARSLQGLRV 540
Cdd:cd18809   32 QAYAMTIHKSQGSEFDRVIVVLPTShpmLSRGLLYTALTRARKLLTLVG 80
recD TIGR01447
exodeoxyribonuclease V, alpha subunit; This family describes the exodeoxyribonuclease V alpha ...
134-568 1.11e-14

exodeoxyribonuclease V, alpha subunit; This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273631 [Multi-domain]  Cd Length: 582  Bit Score: 77.11  E-value: 1.11e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  134 EAPRWPLPVKRLSLPSTKPQLSEEQAAVLRAVLKGQSIFFTGSAGTGKSYLLKRILGSL---------------PPTGTV 198
Cdd:TIGR01447 125 EARKRTAPSAILENLFPLLNEQNWRKTAVALALKSNFSLITGGPGTGKTTTVARLLLALvkqspkqgklrialaAPTGKA 204
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  199 AT---------------ASTGVAACHIGGTTLHAFAGIGSGQAPLAQCvalaqrpgvRQGWLNCQRLVIDEISMVEADLF 263
Cdd:TIGR01447 205 AArlaeslrkavknlaaAEALIAALPSEAVTIHRLLGIKPDTKRFRHH---------ERNPLPLDVLVVDEASMVDLPLM 275
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  264 DKLeavARAVRqqnkpfGGIQLIICGDFLQLPPVTKGSQPPRFCFQSKSWKRCVPVTLELTKVWRQ---ADQTF------ 334
Cdd:TIGR01447 276 AKL---LKALP------PNTKLILLGDKNQLPSVEAGAVLGDLCELASIGKSILYALCKKINSKTRnplSDNVCflktsh 346
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  335 -------ISLL-QAVRLGRC----SDEVTRQLQATASHKVGRDGIVATRlcthqdDVALTNERRLQELpgkvHRFEAMDS 402
Cdd:TIGR01447 347 rfgkdsgIGQLaKAINSGDIeavlNNLRSGQLIEFEFLNSKEDAIERLK------NLYVKYRTFLQKL----AALSDAKE 416
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  403 NPELASTLDAQCP--------------VSQLLQLK----------LGAQVMLVKNlSVSRGLVNGARGVVvgFEAEGRGL 458
Cdd:TIGR01447 417 ILETFDRLRLLTAlrdgpfgvlglnrrIEQELQEKyfdpdeegwyIGRPIMVTEN-DYTLGLFNGDIGVL--LRDPDGIL 493
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  459 PQVRFLCGVTEVIHADRWTVQATggqllsrqqlplqlAWAMSIHKSQGMTLDCVEISL----GRVFASGQAYVALSRARs 534
Cdd:TIGR01447 494 TVWFHFADGSKAVLPSRLPNYET--------------AFAMTVHKSQGSEFDHVILILpngnSPVLTRELLYTGITRAK- 558
                         490       500       510
                  ....*....|....*....|....*....|....
gi 557357749  535 lqglrvldfDPMAVRCDPRVLHfYATLRRGRSLS 568
Cdd:TIGR01447 559 ---------DQLSVWSDKETLN-AAIKRKNKRLS 582
AAA_30 pfam13604
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
153-345 8.31e-14

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B.


Pssm-ID: 433343 [Multi-domain]  Cd Length: 191  Bit Score: 70.29  E-value: 8.31e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  153 QLSEEQAAVLRAVLKGQSIFF--TGSAGTGKSYLLK-----------RILGsLPPTGTVA---TASTGVAAchiggTTLH 216
Cdd:pfam13604   1 TLNAEQAAAVRALLTSGDRVAvlVGPAGTGKTTALKalreaweaagyRVIG-LAPTGRAAkvlGEELGIPA-----DTIA 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  217 AFAGigsgqaplaqcvalaqRPGVRQGWLNCQRLVIDEISMVEADLFDKLEAVARAVrqqnkpfgGIQLIICGDFLQLPP 296
Cdd:pfam13604  75 KLLH----------------RLGGRAGLDPGTLLIVDEAGMVGTRQMARLLKLAEDA--------GARVILVGDPRQLPS 130
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 557357749  297 VTKGsQPPRFCFQSkswkrcVPVTLELTKVWRQADQTFISLLQAVRLGR 345
Cdd:pfam13604 131 VEAG-GAFRDLLAA------GIGTAELTEIVRQRDPWQRAASLALRDGD 172
SF1_C cd18786
C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family ...
484-542 1.08e-10

C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Similar to SF2 helicases, they do not form toroidal, predominantly hexameric structures like SF3-6. SF1 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350173 [Multi-domain]  Cd Length: 89  Bit Score: 58.22  E-value: 1.08e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 557357749 484 QLLSRQQLPLQLAWAMSIHKSQGMTLDCVEISLGRVFA--SGQAYVALSRARslQGLRVLD 542
Cdd:cd18786   31 QGLSLDEFDLQLVGAITIDSSQGLTFDVVTLYLPTANSltPRRLYVALTRAR--KRLVIYD 89
TraA_Ti TIGR02768
Ti-type conjugative transfer relaxase TraA; This protein contains domains distinctive of a ...
154-533 2.47e-09

Ti-type conjugative transfer relaxase TraA; This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.


Pssm-ID: 274289 [Multi-domain]  Cd Length: 744  Bit Score: 60.21  E-value: 2.47e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  154 LSEEQAAVLRAVLKGQSI-FFTGSAGTGKSYLLKRILGSLPPTG--TVATASTGVAAchiggTTLHAFAGI-----GSGQ 225
Cdd:TIGR02768 353 LSEEQYEAVRHVTGSGDIaVVVGRAGTGKSTMLKAAREAWEAAGyrVIGAALSGKAA-----EGLQAESGIesrtlASLE 427
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  226 APLAQCVALAQRPGVrqgwlncqrLVIDEISMVEadlFDKLEAVARAVRQqnkpfGGIQLIICGDFLQLPPVTKGSqPPR 305
Cdd:TIGR02768 428 YAWANGRDLLSDKDV---------LVIDEAGMVG---SRQMARVLKEAEE-----AGAKVVLVGDPEQLQPIEAGA-AFR 489
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  306 FCFQSKSWkrcvpvtLELTKVWRQADqtfiSLLQAVRLGRCSDEVTRQLQATASH---------KVGRDGIVA------- 369
Cdd:TIGR02768 490 AIAERIGY-------AELETIRRQRE----AWARQASLELARGDVEKALAAYRDHghitihdtrEEAIEQVVAdwkqdlr 558
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  370 ------TR--LCTHQDDVALTNE-----RRLQELPGKVHRFEAMDSNPELAStldaqcpvsqllqlklGAQVMLVKNlSV 436
Cdd:TIGR02768 559 eanpagSQimLAHTRKDVRALNEaareaLIERGELGESILFQTARGERKFAA----------------GDRIVFLEN-NR 621
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  437 SRGLVNGARGVVvgfeaegrglpqvrflcgvtEVIHADRWTVQATGGQLLS---RQQLPLQLAWAMSIHKSQGMTLDCVe 513
Cdd:TIGR02768 622 DLGVKNGMLGTV--------------------EEIEDGRLVVQLDSGELVIipqAEYDALDHGYATTIHKSQGVTVDRA- 680
                         410       420
                  ....*....|....*....|....*
gi 557357749  514 islgRVFASGQ-----AYVALSRAR 533
Cdd:TIGR02768 681 ----FVLASKSmdrhlAYVAMTRHR 701
AAA_19 pfam13245
AAA domain;
158-297 3.90e-07

AAA domain;


Pssm-ID: 433059 [Multi-domain]  Cd Length: 136  Bit Score: 49.52  E-value: 3.90e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  158 QAAVLRAVLKGQSIFFTGSAGTGKSYLLKRILGSL-------------PPTGTVA---TASTGVAAchiggTTLHAFAGI 221
Cdd:pfam13245   1 QREAVRTALPSKVVLLTGGPGTGKTTTIRHIVALLvalggvsfpillaAPTGRAAkrlSERTGLPA-----STIHRLLGF 75
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 557357749  222 GsgqaPLAQCVALAQRPGVRQGWLncqrLVIDEISMVEADLFDKL-EAVARavrqqnkpfgGIQLIICGDFLQLPPV 297
Cdd:pfam13245  76 D----DLEAGGFLRDEEEPLDGDL----LIVDEFSMVDLPLAYRLlKALPD----------GAQLLLVGDPDQLPSV 134
PRK13889 PRK13889
conjugal transfer relaxase TraA; Provisional
434-587 2.40e-04

conjugal transfer relaxase TraA; Provisional


Pssm-ID: 237546 [Multi-domain]  Cd Length: 988  Bit Score: 44.30  E-value: 2.40e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 434 LSVSRGLVNGARGVVVGFEAEGRGLPQVRFLCGVTEVIHADRWTVQATGGQLLS---RQQLPLQLAWAMSIHKSQGMTLD 510
Cdd:PRK13889 592 VTVERGERSFASGDRVMFLQNERGLGVKNGTLGTIEQVSAQSMSVRLDDGRSVAfdlKDYDRIDHGYAATIHKAQGMTVD 671
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749 511 CVEISLGRVFASGQAYVALSRARslqglrvldfDPMAvrcdprvLHF----YATLRR-GRSLSLESPDDdeAASDQENMD 585
Cdd:PRK13889 672 RTHVLATPGMDAHSSYVALSRHR----------DGVD-------LHYgrddFADRDRlVRTLSRDRAKD--MASDYERAD 732

                 ..
gi 557357749 586 PI 587
Cdd:PRK13889 733 PA 734
PHA03311 PHA03311
helicase-primase subunit BBLF4; Provisional
498-546 3.42e-04

helicase-primase subunit BBLF4; Provisional


Pssm-ID: 223040  Cd Length: 782  Bit Score: 43.74  E-value: 3.42e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 557357749 498 AMSIHKSQGMTLDCVEISlgrvFASG------QAYVALSRARSLQGLRvLDFDPM 546
Cdd:PHA03311 706 AMTIAKSQGLSLDKVAIC----FGNHknlklsHVYVAMSRVTSSNFLV-MNLNPL 755
Herpes_Helicase pfam02689
Helicase; This family consists of Helicases from the Herpes viruses. Helicases are responsible ...
498-558 3.78e-04

Helicase; This family consists of Helicases from the Herpes viruses. Helicases are responsible for the unwinding of DNA and are essential for replication and completion of the viral life cycle.


Pssm-ID: 280797  Cd Length: 809  Bit Score: 43.55  E-value: 3.78e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 557357749  498 AMSIHKSQGMTLDCVEISLG--RVFASGQAYVALSRARSLQGLrVLDFDPMAVR---------------CDPRVLHFY 558
Cdd:pfam02689 733 AMTIAKSQGLSLDKVAICFGnhPNLKLSHVYVAMSRATDPNHL-VMNVNPLRLRyekdnpiskhivkalKNPNTLLVY 809
AAA_22 pfam13401
AAA domain;
169-289 6.96e-04

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 40.02  E-value: 6.96e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557357749  169 QSIFFTGSAGTGKSYLLKRILGSLP--PTGTV---ATASTGVAAchIGGTTLHAFAGIGSGQAPLAQCVALAQRPGVRQG 243
Cdd:pfam13401   6 GILVLTGESGTGKTTLLRRLLEQLPevRDSVVfvdLPSGTSPKD--LLRALLRALGLPLSGRLSKEELLAALQQLLLALA 83
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 557357749  244 wlNCQRLVIDEISMVEADLFDKLeavaraVRQQNKPFGGIQLIICG 289
Cdd:pfam13401  84 --VAVVLIIDEAQHLSLEALEEL------RDLLNLSSKLLQLILVG 121
DEXXQc_Upf1-like cd17934
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ...
246-300 3.96e-03

DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), coronavirus Nsp13, and similar proteins. They belong 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: 438708 [Multi-domain]  Cd Length: 121  Bit Score: 37.60  E-value: 3.96e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 557357749 246 NCQRLVIDEISMV-EADLFdkleavarAVRQQNKpfggiQLIICGDFLQLPPVTKG 300
Cdd:cd17934   44 NVDVVIIDEASQItEPELL--------IALIRAK-----KVVLVGDPKQLPPVVQE 86
UvrD_C_2 pfam13538
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ...
495-533 8.38e-03

UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety of helicase enzymes. This domain has a AAA-like structural fold.


Pssm-ID: 463913 [Multi-domain]  Cd Length: 52  Bit Score: 34.86  E-value: 8.38e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 557357749  495 LAWAMSIHKSQGMTLDCVEISLGRVFASGQA-------YVALSRAR 533
Cdd:pfam13538   1 LAYALTVHKAQGSEFPAVFLVDPDLTAHYHSmlrrrllYTAVTRAR 46
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

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