|
Name |
Accession |
Description |
Interval |
E-value |
| DnaB_C |
pfam03796 |
DnaB-like helicase C terminal domain; The hexameric helicase DnaB unwinds the DNA duplex at ... |
25-278 |
1.29e-163 |
|
DnaB-like helicase C terminal domain; The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Pssm-ID: 427509 [Multi-domain] Cd Length: 254 Bit Score: 454.57 E-value: 1.29e-163
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 25 GVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIFSLEMSRSEITMRMLAAEARVPLNNIR 104
Cdd:pfam03796 1 GLPTGFTDLDRLTGGLQPGDLIIIAARPSMGKTAFALNIARNAAVKHKKPVAIFSLEMSAEQLVMRLLASEAGVDSQKLR 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 105 SGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRHNLKLIVIDYLQLMTSGKKVENRQQEVSEFSRQ 184
Cdd:pfam03796 81 TGQLTDEDWEKLAKAAGRLSEAPLYIDDTPGLSIAEIRAKARRLKREHGLGLIVIDYLQLMSGGSRGENRQQEISEISRS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 185 LKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHREDLYDSQNRSGEADLIVAKHRNGPTRT 264
Cdd:pfam03796 161 LKALAKELNVPVIALSQLSRAVEQRTDKRPQLSDLRESGAIEQDADVVMFLYRDEYYNPKEPEGKAEIIIAKQRNGPTGT 240
|
250
....*....|....
gi 143323855 265 ITVSAQLHLARFTD 278
Cdd:pfam03796 241 VKLAFLGEYTRFEN 254
|
|
| DnaB |
TIGR00665 |
replicative DNA helicase; This model describes the helicase DnaB, a homohexameric protein ... |
1-280 |
6.24e-161 |
|
replicative DNA helicase; This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of > 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273206 [Multi-domain] Cd Length: 432 Bit Score: 454.57 E-value: 6.24e-161
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 1 VQLSELLPAAYDEIEKISAGVVG-EGVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIFS 79
Cdd:TIGR00665 151 KSIKEILKEAVEEIEELYERKGGiTGVPTGFTDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFS 230
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 80 LEMSRSEITMRMLAAEARVPLNNIRSGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRHNLKLIVI 159
Cdd:TIGR00665 231 LEMSAEQLVMRMLSSESRVDSQKLRTGRLSDEDWEKLTEAAGELSEAPLYIDDTPGLTITELRAKARRLKREHGLGLIVI 310
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 160 DYLQLMTSGKKVENRQQEVSEFSRQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHRED 239
Cdd:TIGR00665 311 DYLQLMSGSGRSENRQQEVSEISRSLKALAKELNVPVIALSQLSRSVEQREDKRPQLSDLRESGSIEQDADIVMFLYRDE 390
|
250 260 270 280
....*....|....*....|....*....|....*....|..
gi 143323855 240 LYD-SQNRSGEADLIVAKHRNGPTRTITVSAQLHLARFTDMA 280
Cdd:TIGR00665 391 YYNpDSEDKGIAEIIIAKQRNGPTGTVKLAFLGEYTRFENLA 432
|
|
| DnaB |
COG0305 |
Replicative DNA helicase [Replication, recombination and repair]; |
1-280 |
4.67e-160 |
|
Replicative DNA helicase [Replication, recombination and repair];
Pssm-ID: 440074 [Multi-domain] Cd Length: 429 Bit Score: 452.22 E-value: 4.67e-160
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 1 VQLSELLPAAYDEIEKI--SAGVVgEGVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIF 78
Cdd:COG0305 148 VSISDILKEALERIEELykNGGGI-TGVPTGFTDLDKLTGGLQPGDLIILAARPSMGKTAFALNIARNAAIKEGKPVAIF 226
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 79 SLEMSRSEITMRMLAAEARVPLNNIRSGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRHNLKLIV 158
Cdd:COG0305 227 SLEMSAEQLVMRLLSSEARIDSSKLRTGKLSDEDWERLSSAAGELSEAPIYIDDTPGLTIAEIRAKARRLKREHGLGLIV 306
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 159 IDYLQLMTSGKKVENRQQEVSEFSRQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHRE 238
Cdd:COG0305 307 IDYLQLMSGSGRSENRQQEISEISRSLKALAKELNVPVIALSQLSRAVEQRTDKRPQLSDLRESGSIEQDADVVMFLYRD 386
|
250 260 270 280
....*....|....*....|....*....|....*....|...
gi 143323855 239 DLYDSQN-RSGEADLIVAKHRNGPTRTITVSAQLHLARFTDMA 280
Cdd:COG0305 387 EYYNPDSeDKGIAEIIIAKQRNGPTGTVKLAFDGEYTRFENLA 429
|
|
| PRK05636 |
PRK05636 |
replicative DNA helicase; Provisional |
3-280 |
1.27e-144 |
|
replicative DNA helicase; Provisional
Pssm-ID: 180177 [Multi-domain] Cd Length: 505 Bit Score: 416.16 E-value: 1.27e-144
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 3 LSELLPAAYDEIEKISA-GVVGEGVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIFSLE 81
Cdd:PRK05636 224 LADILDPTMDELEMLSSqGGIATGIPTGFKDLDDLTNGLRGGQMIIVAARPGVGKSTLALDFMRSASIKHNKASVIFSLE 303
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 82 MSRSEITMRMLAAEARVPLNNIRSGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRHNLKLIVIDY 161
Cdd:PRK05636 304 MSKSEIVMRLLSAEAEVRLSDMRGGKMDEDAWEKLVQRLGKIAQAPIFIDDSANLTMMEIRSKARRLKQKHDLKLIVVDY 383
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 162 LQLMTSGKKVENRQQEVSEFSRQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHREDLY 241
Cdd:PRK05636 384 LQLMSSGKRVESRQQEVSEFSRQLKLLAKELDVPLIAISQLNRGPESRTDKRPQLADLRESGSLEQDADMVMLLYRPDSQ 463
|
250 260 270 280
....*....|....*....|....*....|....*....|
gi 143323855 242 DSQN-RSGEADLIVAKHRNGPTRTITVSAQLHLARFTDMA 280
Cdd:PRK05636 464 DKDDeRAGEADIILAKHRGGPIDTVQVAHQLHYSRFVDMA 503
|
|
| DnaB_C |
cd00984 |
C-terminal domain of DnaB helicase; DnaB helicase C-terminal domain. The hexameric helicase ... |
25-278 |
9.36e-140 |
|
C-terminal domain of DnaB helicase; DnaB helicase C-terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Pssm-ID: 410864 [Multi-domain] Cd Length: 256 Bit Score: 394.19 E-value: 9.36e-140
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 25 GVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIFSLEMSRSEITMRMLAAEARVPLNNIR 104
Cdd:cd00984 1 GLPTGFTDLDKLTGGLQPGDLIIIAARPSMGKTAFALNIAENIALDEGLPVLFFSLEMSAEQLAERLLSSESGVSLSKLR 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 105 SGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRH-NLKLIVIDYLQLMTSGKKVENRQQEVSEFSR 183
Cdd:cd00984 81 TGRLDDEDWERLTAAMGELSELPLYIDDTPGLTVDEIRAKARRLKREHgGLGLIVIDYLQLIRGSKRAENRQQEVAEISR 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 184 QLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHREDLYDSQN-RSGEADLIVAKHRNGPT 262
Cdd:cd00984 161 SLKALAKELNVPVIALSQLNRGVESRTDKRPMLSDLRESGSIEQDADVVIFLYRDEYYDKDSeDKGIAEIIIAKNRNGPT 240
|
250
....*....|....*.
gi 143323855 263 RTITVSAQLHLARFTD 278
Cdd:cd00984 241 GTVYLAFNPEYTRFTD 256
|
|
| PRK07773 |
PRK07773 |
replicative DNA helicase; Validated |
1-235 |
8.52e-121 |
|
replicative DNA helicase; Validated
Pssm-ID: 236093 [Multi-domain] Cd Length: 886 Bit Score: 366.38 E-value: 8.52e-121
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 1 VQLSELLPAAYDEIEKI-SAGVVGEGVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIFS 79
Cdd:PRK07773 174 VALEDLLQPTFDEIDAIaSSGGLARGVPTGFTELDAMTNGLHPGQLIIVAARPSMGKTTFGLDFARNCAIRHRLAVAIFS 253
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 80 LEMSRSEITMRMLAAEARVPLNNIRSGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRHNLKLIVI 159
Cdd:PRK07773 254 LEMSKEQLVMRLLSAEAKIKLSDMRSGRMSDDDWTRLARAMGEISEAPIFIDDTPNLTVMEIRAKARRLRQEANLGLIVV 333
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 143323855 160 DYLQLMTSGKKVENRQQEVSEFSRQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEqdADVVILL 235
Cdd:PRK07773 334 DYLQLMTSGKKYENRQQEVSEISRHLKLLAKELEVPVVALSQLSRGVEQRTDKRPMLSDLRESGCLT--GDTLILR 407
|
|
| PRK05748 |
PRK05748 |
replicative DNA helicase; Provisional |
1-280 |
6.57e-118 |
|
replicative DNA helicase; Provisional
Pssm-ID: 180232 [Multi-domain] Cd Length: 448 Bit Score: 345.79 E-value: 6.57e-118
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 1 VQLSELLPAAYDEIEKIS--AGVVgEGVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIF 78
Cdd:PRK05748 160 KNIKDVLVKAYDRIEMLHnqTGDI-TGIPTGFTDLDKMTSGLQPNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIF 238
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 79 SLEMSRSEITMRMLAAEARVPLNNIRSGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRH-NLKLI 157
Cdd:PRK05748 239 SLEMGAESLVMRMLCAEGNIDAQRLRTGQLTDDDWPKLTIAMGSLSDAPIYIDDTPGIKVTEIRARCRRLAQEHgGLGLI 318
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 158 VIDYLQLMT-SGKKVENRQQEVSEFSRQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLH 236
Cdd:PRK05748 319 LIDYLQLIQgSGRSGENRQQEVSEISRSLKALAKELKVPVIALSQLSRGVEQRQDKRPVMSDIRESGSIEQDADIVAFLY 398
|
250 260 270 280
....*....|....*....|....*....|....*....|....*.
gi 143323855 237 REDLYD--SQNRsGEADLIVAKHRNGPTRTITVSAQLHLARFTDMA 280
Cdd:PRK05748 399 RDDYYDeeTENK-NTIEIIIAKQRNGPVGTVELAFQKEYNKFVNLA 443
|
|
| PRK09165 |
PRK09165 |
replicative DNA helicase; Provisional |
25-282 |
3.65e-102 |
|
replicative DNA helicase; Provisional
Pssm-ID: 181676 [Multi-domain] Cd Length: 497 Bit Score: 307.19 E-value: 3.65e-102
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 25 GVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIA-RYASIHKRET------------SV-IFSLEMSRSEITMR 90
Cdd:PRK09165 199 GISTGLRDLDSKLGGLHPSDLIILAGRPSMGKTALATNIAfNAAKAYRREAqpdgskkavnggVVgFFSLEMSAEQLATR 278
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 91 MLAAEARVPLNNIRSGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRHNLKLIVIDYLQLMTSGKK 170
Cdd:PRK09165 279 ILSEQSEISSSKIRRGKISEEDFEKLVDASQELQKLPLYIDDTPALSISQLRARARRLKRQHGLDLLVVDYLQLIRGSSK 358
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 171 V--ENRQQEVSEFSRQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHREDLY------- 241
Cdd:PRK09165 359 RssDNRVQEISEITQGLKALAKELNIPVIALSQLSRQVEQRDDKRPQLSDLRESGSIEQDADVVMFVYREEYYlkrkepr 438
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|..
gi 143323855 242 ----------DSQNR-SGEADLIVAKHRNGPTRTITVSAQLHLARFTDMATN 282
Cdd:PRK09165 439 egtpkheewqEKMEKvHNKAEVIIAKQRHGPTGTVKLAFESEFTRFGDLADR 490
|
|
| PRK05595 |
PRK05595 |
replicative DNA helicase; Provisional |
3-279 |
2.02e-100 |
|
replicative DNA helicase; Provisional
Pssm-ID: 235525 [Multi-domain] Cd Length: 444 Bit Score: 301.36 E-value: 2.02e-100
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 3 LSELLPAAYDEIEKIsAGVVGE--GVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIFSL 80
Cdd:PRK05595 160 LSNVLERGFEQIENL-FNNKGEttGVASGFRELDAKTSGFQKGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSL 238
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 81 EMSRSEITMRMLAAEARVPLNNIRSGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRHNLKLIVID 160
Cdd:PRK05595 239 EMSKEQLAYKLLCSEANVDMLRLRTGNLEDKDWENIARASGPLAAAKIFIDDTAGVSVMEMRSKCRRLKIEHGIDMILID 318
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 161 YLQLMTSGKKVENRQQEVSEFSRQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHREDL 240
Cdd:PRK05595 319 YLQLMSGGKGSESRQQEVSEISRSIKALAKEMECPVIALSQLSRAPEQRADHRPMLSDLRESGSIEQDADVVMFLYRDEY 398
|
250 260 270 280
....*....|....*....|....*....|....*....|
gi 143323855 241 YDSQNR-SGEADLIVAKHRNGPTRTITVSAQLHLARFTDM 279
Cdd:PRK05595 399 YNKETEdKNVAECIIAKQRNGPTGTVKLAWLGQYSKFGNL 438
|
|
| PRK08506 |
PRK08506 |
replicative DNA helicase; Provisional |
15-282 |
1.08e-96 |
|
replicative DNA helicase; Provisional
Pssm-ID: 236278 [Multi-domain] Cd Length: 472 Bit Score: 292.68 E-value: 1.08e-96
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 15 EKISAGVVGegVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYAsIHKRETSVIFSLEMSRSEITMRMLAA 94
Cdd:PRK08506 166 RLGNKDIIG--LDTGFVELNKMTKGFNKGDLIIIAARPSMGKTTLCLNMALKA-LNQDKGVAFFSLEMPAEQLMLRMLSA 242
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 95 EARVPLNNIRSGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRHN-LKLIVIDYLQLMTSGKKVEN 173
Cdd:PRK08506 243 KTSIPLQNLRTGDLDDDEWERLSDACDELSKKKLFVYDSGYVNIHQVRAQLRKLKSQHPeIGLAVIDYLQLMSGSGNFKD 322
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 174 RQQEVSEFSRQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHREDLY------------ 241
Cdd:PRK08506 323 RHLQISEISRGLKLLARELDIPIIALSQLNRSLESRADKRPMLSDLRESGAIEQDADIILFVYRDDVYkereekekekka 402
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|..
gi 143323855 242 ----------DSQNRSGE-ADLIVAKHRNGPTRTITVSAQLHLARFTDMATN 282
Cdd:PRK08506 403 kkegkeerriHFQNKSIEeAEIIIGKNRNGPTGTVKLRFQKEFTRFVDKPIE 454
|
|
| phage_DnaB |
TIGR03600 |
phage replicative helicase, DnaB family, HK022 subfamily; Members of this family are phage (or ... |
1-267 |
1.04e-95 |
|
phage replicative helicase, DnaB family, HK022 subfamily; Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model. [Mobile and extrachromosomal element functions, Prophage functions]
Pssm-ID: 274672 [Multi-domain] Cd Length: 420 Bit Score: 288.53 E-value: 1.04e-95
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 1 VQLSELLPAAYDEIEK-ISAGVVGEGVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIFS 79
Cdd:TIGR03600 150 VTFGEVLEDVVRDLDKrFNPKGELTGLSTGLPKLDRLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFS 229
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 80 LEMSRSEITMRMLAAEARVPLNNIRSGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRHN-LKLIV 158
Cdd:TIGR03600 230 LEMSAEQLGERLLASKSGINTGNIRTGRFNDSEFNRLLNAVDRLSEKDLYIDDTGGLTVAQIRSIARRIKRKKGgLDLIV 309
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 159 IDYLQLMTSGKKvENRQQEVSEFSRQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHRE 238
Cdd:TIGR03600 310 VDYIQLMAPARG-RDRNEELGGISRGLKALAKELDVPVVLLAQLNRGSEKRTDKRPIMSDLRDSGAIEQDADVIGLIHRE 388
|
250 260 270
....*....|....*....|....*....|
gi 143323855 239 DLYD-SQNRSGEADLIVAKHRNGPTRTITV 267
Cdd:TIGR03600 389 GYYDaREPPAGIAELILAKNRHGPTGTVEL 418
|
|
| PRK08760 |
PRK08760 |
replicative DNA helicase; Provisional |
25-280 |
8.20e-92 |
|
replicative DNA helicase; Provisional
Pssm-ID: 181547 [Multi-domain] Cd Length: 476 Bit Score: 280.26 E-value: 8.20e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 25 GVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIFSLEMSRSEITMRMLAAEARVPLNNIR 104
Cdd:PRK08760 211 GLPTGYNDFDAMTAGLQPTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMSASQLAMRLISSNGRINAQRLR 290
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 105 SGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRHNLKLIVIDYLQLMTSGKKVENRQQEVSEFSRQ 184
Cdd:PRK08760 291 TGALEDEDWARVTGAIKMLKETKIFIDDTPGVSPEVLRSKCRRLKREHDLGLIVIDYLQLMSVPGNSENRATEISEISRS 370
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 185 LKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHREDLYDSQNRS--GEADLIVAKHRNGPT 262
Cdd:PRK08760 371 LKGLAKELNVPVIALSQLNRSLETRTDKRPVMADLRESGAIEQDADMIVFIYRDDYYNKENSPdkGLAEIIIGKHRGGPT 450
|
250
....*....|....*...
gi 143323855 263 RTITVSAQLHLARFTDMA 280
Cdd:PRK08760 451 GSCKLKFFGEYTRFDNLA 468
|
|
| PRK07004 |
PRK07004 |
replicative DNA helicase; Provisional |
25-289 |
2.39e-86 |
|
replicative DNA helicase; Provisional
Pssm-ID: 235907 [Multi-domain] Cd Length: 460 Bit Score: 265.62 E-value: 2.39e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 25 GVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIFSLEMSRSEITMRMLAAEARVPLNNIR 104
Cdd:PRK07004 195 GTPTGFVDLDRMTSGMHGGELIIVAGRPSMGKTAFSMNIGEYVAVEYGLPVAVFSMEMPGTQLAMRMLGSVGRLDQHRMR 274
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 105 SGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRL-KQRHNLKLIVIDYLQLMTSGKKVENRQQEVSEFSR 183
Cdd:PRK07004 275 TGRLTDEDWPKLTHAVQKMSEAQLFIDETGGLNPMELRSRARRLaRQCGKLGLIIIDYLQLMSGSSQGENRATEISEISR 354
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 184 QLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHREDLY--DSQNRsGEADLIVAKHRNGP 261
Cdd:PRK07004 355 SLKSLAKELDVPVIALSQLNRGLEQRPNKRPVMSDLRESGAIEQDADVILFIYRDEVYnpDSPDK-GTAEIIIGKQRNGP 433
|
250 260
....*....|....*....|....*...
gi 143323855 262 TRTITVSAQLHLARFtdmaTNFVPTEKF 289
Cdd:PRK07004 434 IGPVRLTFLGQYTKF----DNFAGAQNF 457
|
|
| PRK08840 |
PRK08840 |
replicative DNA helicase; Provisional |
25-280 |
3.83e-83 |
|
replicative DNA helicase; Provisional
Pssm-ID: 181562 [Multi-domain] Cd Length: 464 Bit Score: 257.61 E-value: 3.83e-83
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 25 GVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIFSLEMSRSEITMRMLAAEARVPLNNIR 104
Cdd:PRK08840 199 GVDTGFTDLNKKTAGLQGSDLIIVAARPSMGKTTFAMNLCENAAMDQDKPVLIFSLEMPAEQLMMRMLASLSRVDQTKIR 278
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 105 SGQLGEEEWAKMARRMGEISDAP-LFIDDSPNLSLMEIRAKARRLKQRHN-LKLIVIDYLQLMTSGKKVENRQQEVSEFS 182
Cdd:PRK08840 279 TGQLDDEDWARISSTMGILMEKKnMYIDDSSGLTPTEVRSRARRIAREHGgLSMIMVDYLQLMRVPALSDNRTLEIAEIS 358
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 183 RQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHREDLYDSQ-NRSGEADLIVAKHRNGP 261
Cdd:PRK08840 359 RSLKALAKELNVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYNPDsPLKGTAEIIIGKQRNGP 438
|
250
....*....|....*....
gi 143323855 262 TRTITVSAQLHLARFTDMA 280
Cdd:PRK08840 439 IGSVRLTFQGQYSRFDNYA 457
|
|
| PRK06904 |
PRK06904 |
replicative DNA helicase; Validated |
6-280 |
1.84e-80 |
|
replicative DNA helicase; Validated
Pssm-ID: 136106 [Multi-domain] Cd Length: 472 Bit Score: 251.07 E-value: 1.84e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 6 LLPAAYDEIEKISA-----GVVGegVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIFSL 80
Cdd:PRK06904 181 LLENTIDKIENLAAtptnnGVTG--VTTGFTDLDKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFSL 258
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 81 EMSRSEITMRMLAAEARVPLNNIRSGQ-LGEEEWAKMARRMGEISDAP-LFIDDSPNLSLMEIRAKARRL-KQRHNLKLI 157
Cdd:PRK06904 259 EMPAEQIMMRMLASLSRVDQTKIRTGQnLDQQDWAKISSTVGMFKQKPnLYIDDSSGLTPTELRSRARRVyRENGGLSLI 338
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 158 VIDYLQLMTSGKKVENRQQEVSEFSRQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHR 237
Cdd:PRK06904 339 MVDYLQLMRAPGFEDNRTLEIAEISRSLKALAKELKVPVVALSQLNRTLENRGDKRPVNSDLRESGSIEQDADLIMFIYR 418
|
250 260 270 280
....*....|....*....|....*....|....*....|....*
gi 143323855 238 EDLYD--SQNRSGEADLIVAKHRNGPTRTITVSAQLHLARFTDMA 280
Cdd:PRK06904 419 DEVYNetTEDNKGVAEIIIGKQRNGPIGRVRLAFQGQYSRFDNLA 463
|
|
| PRK08006 |
PRK08006 |
replicative DNA helicase DnaB; |
25-280 |
6.90e-80 |
|
replicative DNA helicase DnaB;
Pssm-ID: 181193 [Multi-domain] Cd Length: 471 Bit Score: 249.54 E-value: 6.90e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 25 GVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIFSLEMSRSEITMRMLAAEARVPLNNIR 104
Cdd:PRK08006 206 GVNTGYDDLNKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSLEMPGEQIMMRMLASLSRVDQTRIR 285
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 105 SGQLGEEEWAKMARRMGEISDA-PLFIDDSPNLSLMEIRAKARRLKQRHN-LKLIVIDYLQLMTSGKKVENRQQEVSEFS 182
Cdd:PRK08006 286 TGQLDDEDWARISGTMGILLEKrNMYIDDSSGLTPTEVRSRARRIFREHGgLSLIMIDYLQLMRVPSLSDNRTLEIAEIS 365
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 183 RQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHREDLY-DSQNRSGEADLIVAKHRNGP 261
Cdd:PRK08006 366 RSLKALAKELQVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYhENSDLKGIAEIIIGKQRNGP 445
|
250
....*....|....*....
gi 143323855 262 TRTITVSAQLHLARFTDMA 280
Cdd:PRK08006 446 IGTVRLTFNGQWSRFDNYA 464
|
|
| PRK06321 |
PRK06321 |
replicative DNA helicase; Provisional |
25-280 |
1.30e-78 |
|
replicative DNA helicase; Provisional
Pssm-ID: 180528 [Multi-domain] Cd Length: 472 Bit Score: 246.29 E-value: 1.30e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 25 GVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIFSLEMSRSEITMRMLAAEARVPLNNIR 104
Cdd:PRK06321 208 GIPTHFIDLDKMINGFSPSNLMILAARPAMGKTALALNIAENFCFQNRLPVGIFSLEMTVDQLIHRIICSRSEVESKKIS 287
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 105 SGQLGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRHNLKLIVIDYLQLMTSG---KKVENRQQEVSEF 181
Cdd:PRK06321 288 VGDLSGRDFQRIVSVVNEMQEHTLLIDDQPGLKITDLRARARRMKESYDIQFLIIDYLQLLSGSgnlRNSESRQTEISEI 367
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 182 SRQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHREDLYDSQNRSGEADLIVAKHRNGP 261
Cdd:PRK06321 368 SRMLKNLARELNIPILCLSQLSRKVEDRANHRPMMSDLRESGSIEQDSDLVMFLLRREYYDPNDKPGTAELIVAKNRHGS 447
|
250
....*....|....*....
gi 143323855 262 TRTITVSAQLHLARFTDMA 280
Cdd:PRK06321 448 IGSVPLVFEKEFARFRNYA 466
|
|
| PRK06749 |
PRK06749 |
replicative DNA helicase; Provisional |
25-279 |
5.36e-73 |
|
replicative DNA helicase; Provisional
Pssm-ID: 168658 [Multi-domain] Cd Length: 428 Bit Score: 230.61 E-value: 5.36e-73
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 25 GVKTGFKDLDALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASihKRETSV-IFSLEMSRSEITMRMLAAEARVPLNNI 103
Cdd:PRK06749 168 GIETGYTSLNKMTCGLQEGDFVVLGARPSMGKTAFALNVGLHAA--KSGAAVgLFSLEMSSKQLLKRMASCVGEVSGGRL 245
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 104 RSGQ--LGEEEWAKMARRMGEISDAPLFIDDSPNLSLMEIRAKARRLKQRHNLK--LIVIDYLQLMTSGKKVE-NRQQEV 178
Cdd:PRK06749 246 KNPKhrFAMEDWEKVSKAFAEIGELPLEIYDNAGVTVQDIWMQTRKLKRKHGDKkiLIIVDYLQLITGDPKHKgNRFQEI 325
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 179 SEFSRQLKLLAKELNVPVVAISQLNRSPEQRSDKKPMLSDLRESGFIEQDADVVILLHREDLYDSQNRSGE-ADLIVAKH 257
Cdd:PRK06749 326 SEISRKLKLLARELNVCVVALSQLSRSVESRQDKRPLLSDLRETGQIEQDADVIMLMYREDYYDKETMQKEmTEIHVAKH 405
|
250 260
....*....|....*....|..
gi 143323855 258 RNGPTRTITVSAQLHLARFTDM 279
Cdd:PRK06749 406 RNGPVGSFKLRFLKEFGRFVEG 427
|
|
| PRK07773 |
PRK07773 |
replicative DNA helicase; Validated |
225-281 |
1.70e-20 |
|
replicative DNA helicase; Validated
Pssm-ID: 236093 [Multi-domain] Cd Length: 886 Bit Score: 91.35 E-value: 1.70e-20
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 143323855 225 IEQDADVVILLHREDLYDSQN-RSGEADLIVAKHRNGPTRTITVSAQLHLARFTDMAT 281
Cdd:PRK07773 828 IEQDADVVILLYRPDYYDRDDpRGGEAEFIVAKHRNGPTGTVTLAFQLHLSRFANLAR 885
|
|
| RecA-like_Gp4D_helicase |
cd19483 |
RecA-like domain of Escherichia coli bacteriophage T7 Gp4D helicase; This family includes the ... |
46-260 |
2.37e-19 |
|
RecA-like domain of Escherichia coli bacteriophage T7 Gp4D helicase; This family includes the RecA-like domain of the Gp4D fragment of the Gene4 helicase-primase (Gp4) from bacteriophage T7. Gp4D (residues 241-566) is the minimal fragment of the Gp4 that forms hexameric rings, it contains the helicase domain and the linker connecting the helicase and primase domains. Helicases are ring-shaped oligomeric enzymes that unwind DNA at the replication fork; they couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands. This family belongs to the RecA-like NTPase superfamily which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Pssm-ID: 410891 [Multi-domain] Cd Length: 231 Bit Score: 84.54 E-value: 2.37e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 46 VVLAARPAVGKSTLGLDIARYASIHKRETSVIFSLEMSRSEITMRMLAAEARVPLNNIRSGQLGEEEWAKMARRMGEISD 125
Cdd:cd19483 1 VTIGAGSGIGKSTIVRELAYHLITEHGEKVGIISLEESVEETAKGLAGKHLGKPEPLELPRDDITEEEEDDAFDNELGSG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 126 APLFIDDSPNLSLMEIRAKARRLKQRHNLKLIVIDYLQLMTSG--KKVENRQQEvsEFSRQLKLLAKELNVPVVAISQLN 203
Cdd:cd19483 81 RFFLYDHFGSLDWDNLKEKIRYMVKVLGCKVIVLDHLTILVSGldSSDERKELD--EIMTELAALVKELGVTIILVSHLR 158
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 143323855 204 RsPEQRSD----KKPMLSDLRESGFIEQDADVVILLHRE---DLYDSQNRSgeaDLIVAKHRNG 260
Cdd:cd19483 159 R-PGGGKGheegGEVSESDLRGSSAIAQLSDYVIGLERNkqaDDPVERNTT---RVRVLKNRFT 218
|
|
| PRK05973 |
PRK05973 |
replicative DNA helicase; Provisional |
40-220 |
8.31e-16 |
|
replicative DNA helicase; Provisional
Pssm-ID: 168322 [Multi-domain] Cd Length: 237 Bit Score: 75.07 E-value: 8.31e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 40 FHPGNMVVLAARPAVGKSTLGLDIARYASIHKReTSVIFSLEMSRSEITMRMLAaearvplnnirsgqLGEEewakmaRR 119
Cdd:PRK05973 61 LKPGDLVLLGARPGHGKTLLGLELAVEAMKSGR-TGVFFTLEYTEQDVRDRLRA--------------LGAD------RA 119
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 120 mgeiSDAPLFIDDSPNlslmEIRAK--ARRLKQRHNLKLIVIDYLQLMTsgkkvENRQQ-EVSEFSRQLKLLAKELNVPV 196
Cdd:PRK05973 120 ----QFADLFEFDTSD----AICADyiIARLASAPRGTLVVIDYLQLLD-----QRREKpDLSVQVRALKSFARERGLII 186
|
170 180
....*....|....*....|....
gi 143323855 197 VAISQLNRSPEQRSDKKPMLSDLR 220
Cdd:PRK05973 187 VFISQIDRSFDPSAKPLPDIRDVR 210
|
|
| RAD55 |
COG0467 |
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms]; |
26-261 |
1.08e-15 |
|
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
Pssm-ID: 440235 [Multi-domain] Cd Length: 221 Bit Score: 74.18 E-value: 1.08e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 26 VKTGFKDLDALTN-GFHPGNMVVLAARPAVGKSTLGLDIArYASIHKRETSVIFSLEMSRSEItmrmlaaearvpLNNIR 104
Cdd:COG0467 2 VPTGIPGLDELLGgGLPRGSSTLLSGPPGTGKTTLALQFL-AEGLRRGEKGLYVSFEESPEQL------------LRRAE 68
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 105 SGQLGEEEWAKmarrMGEISdaplFIDDSP---NLSLMEIRAKARRLKQRHNLKLIVID----YLQLMTSgkkvenrQQE 177
Cdd:COG0467 69 SLGLDLEEYIE----SGLLR----IIDLSPeelGLDLEELLARLREAVEEFGAKRVVIDslsgLLLALPD-------PER 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 178 VSEFSRQLKLLAKELNVPVVAISQlnrspeqrsdkKPMLSDLRESGFIEQDADVVILLHREDLYDSQNRSgeadLIVAKH 257
Cdd:COG0467 134 LREFLHRLLRYLKKRGVTTLLTSE-----------TGGLEDEATEGGLSYLADGVILLRYVELGGELRRA----LSVLKM 198
|
....
gi 143323855 258 RNGP 261
Cdd:COG0467 199 RGSA 202
|
|
| RepA |
COG3598 |
RecA-family ATPase [Replication, recombination and repair]; |
43-287 |
2.46e-12 |
|
RecA-family ATPase [Replication, recombination and repair];
Pssm-ID: 442817 [Multi-domain] Cd Length: 313 Bit Score: 66.08 E-value: 2.46e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 43 GNMVVLAARPAVGKSTLGLDIARYASI--------HKRETSVIFSLEMSRSEITMRMLAAEARVPLNnirsgqlgeeeWA 114
Cdd:COG3598 13 GGVTLLAGPPGTGKSFLALQLAAAVAAggpwlgrrVPPGKVLYLAAEDDRGELRRRLKALGADLGLP-----------FA 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 115 KMARRMGEISDAPLFIDDSpnlSLMEIRAKARrlkqRHNLKLIVIDYLQLMTSGKkvENRQQEVSEFSRQLKLLAKELNV 194
Cdd:COG3598 82 DLDGRLRLLSLAGDLDDTD---DLEALERAIE----EEGPDLVVIDPLARVFGGD--ENDAEEMRAFLNPLDRLAERTGA 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 195 PVVAISQLNRSpeqrSDKKPMLSDLRESGFIEQDADVVILLHREDlyDSQNRSgeadLIVAKHRNGPTRTITVSAQLHLA 274
Cdd:COG3598 153 AVLLVHHTGKG----GAGKDSGDRARGSSALRGAARSVLVLSREK--GEDLRV----LTRAKSNYGPEIALRWDNGGRLA 222
|
250
....*....|...
gi 143323855 275 RFTDMATNFVPTE 287
Cdd:COG3598 223 LEEVAALTAGAGE 235
|
|
| AAA_25 |
pfam13481 |
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins. |
46-207 |
7.48e-12 |
|
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins.
Pssm-ID: 463892 [Multi-domain] Cd Length: 193 Bit Score: 63.17 E-value: 7.48e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 46 VVLAARPAVGKSTLGLDIAR-YAS-----IHKRETS----VIFSLEMSRSEITMRMLAAEARVPLNNIRSGQLGEEewak 115
Cdd:pfam13481 36 GLLAGAPGTGKTTLALDLAAaVATgkpwlGGPRVPEqgkvLYVSAEGPADELRRRLRAAGADLDLPARLLFLSLVE---- 111
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 116 marrmgeisDAPLFIDDSPNLSLME-IRAKARRLKQRHNLKLIVIDYLQLMTSGkkVENRQQEVSEFSRQLKLLAKELNV 194
Cdd:pfam13481 112 ---------SLPLFFLDRGGPLLDAdVDALEAALEEVEDPDLVVIDPLARALGG--DENSNSDVGRLVKALDRLARRTGA 180
|
170
....*....|...
gi 143323855 195 PVVAISQLNRSPE 207
Cdd:pfam13481 181 TVLLVHHVGKDGA 193
|
|
| 41 |
PHA02542 |
41 helicase; Provisional |
47-230 |
8.28e-08 |
|
41 helicase; Provisional
Pssm-ID: 222864 [Multi-domain] Cd Length: 473 Bit Score: 53.14 E-value: 8.28e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 47 VLAARPAVGKSTLGLDIAryASIHKRETSVI-FSLEMSRSEITMRMLAAEARVPLNNIRsgqlgEEEWAKMARRMGEIS- 124
Cdd:PHA02542 194 VLLAGVNVGKSLGLCSLA--ADYLQQGYNVLyISMEMAEEVIAKRIDANLLDVSLDDID-----DLSKAEYKAKMEKLRs 266
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 125 --DAPLFIDDSPNLS--LMEIRAKARRLKQRHNLK--LIVIDYLQLMTSGK---KVENRQQEVSEFSRQLKLLAKELNVP 195
Cdd:PHA02542 267 ktQGKLIIKQYPTGGahAGHFRALLNELKLKKNFKpdVIIVDYLGICASSRlrvSSENSYTYVKAIAEELRGLAVEHDVV 346
|
170 180 190
....*....|....*....|....*....|....*
gi 143323855 196 VVAISQLNRSPEQRSDkkPMLSDLRESGFIEQDAD 230
Cdd:PHA02542 347 VWTAAQTTRSGWDSSD--VDMSDTAESAGLPATAD 379
|
|
| Rad51B |
cd19493 |
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
34-206 |
1.27e-06 |
|
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51B, together with the other RAD51 paralogs, RAD51C, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site.
Pssm-ID: 410901 [Multi-domain] Cd Length: 222 Bit Score: 48.47 E-value: 1.27e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 34 DALTNGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETS-----VIFSLEMSRSEITMRmLAAEARVPLNNIRSGQL 108
Cdd:cd19493 2 TALAGGLPLGAITEITGASGSGKTQFALTLASSAAMPARKGGldggvLYIDTESKFSAERLA-EIAEARFPEAFSGFMEE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 109 GEEEwAKMARRMGEISdaplfiddspNLSLMEIRAKARRLKQ---RHNLKLIVIDYLQLM------TSGKKVENRQQEVS 179
Cdd:cd19493 81 NERA-EEMLKRVAVVR----------VTTLAQLLERLPNLEEhilSSGVRLVVIDSIAALvrrefgGSDGEVTERHNALA 149
|
170 180
....*....|....*....|....*..
gi 143323855 180 EFSRQLKLLAKELNVPVVAISQLNRSP 206
Cdd:cd19493 150 REASSLKRLAEEFRIAVLVTNQATTHF 176
|
|
| RadA_SMS_N |
cd01121 |
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ... |
26-197 |
1.77e-06 |
|
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a role in recombination and recombinational repair of DNA damaged by UV radiation, X-rays, and chemical agent and is responsible for the stabilization or processing of branched DNA molecules.
Pssm-ID: 410866 [Multi-domain] Cd Length: 268 Bit Score: 48.30 E-value: 1.77e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 26 VKTGFKDLD-ALTNGFHPGNMVVLAARPAVGKSTLGLDIAryASIHKRETSVIF-SLEMSRSEITMRmlaaearvplnni 103
Cdd:cd01121 64 ISTGIGELDrVLGGGLVPGSVVLIGGDPGIGKSTLLLQVA--ARLAQRGGKVLYvSGEESLSQIKLR------------- 128
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 104 rsgqlgeeewakmARRMGEISDaplfiddspNLSLM-EIRAKA-RRLKQRHNLKLIVIDYLQLMTSgKKVENRQQEVS-- 179
Cdd:cd01121 129 -------------AERLGLGSD---------NLYLLaETNLEAiLAEIEELKPSLVVIDSIQTVYS-PELTSSPGSVSqv 185
|
170
....*....|....*....
gi 143323855 180 -EFSRQLKLLAKELNVPVV 197
Cdd:cd01121 186 rECAAELLRLAKETGIPVF 204
|
|
| RepA_RSF1010_like |
cd01125 |
Hexameric Replicative Helicase RepA of plasmid RSF1010 and related proteins; This family ... |
43-252 |
2.66e-05 |
|
Hexameric Replicative Helicase RepA of plasmid RSF1010 and related proteins; This family includes the homo-hexameric replicative helicase RepA encoded by plasmid RSF1010. RSF1010 is found in most Gram-negative bacteria and some Gram-positive bacteria . The RepA protein of Plasmid RSF1010 is a 5'-3' DNA helicase which can utilize ATP, dATP, GTP and dGTP (and CTP and dCTP to a lesser extent).
Pssm-ID: 410870 Cd Length: 238 Bit Score: 44.68 E-value: 2.66e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 43 GNMVVLAARPAVGKSTLGLDIAryASI-----------HKRETSVIFSLEMSRSEITMRMLAAEARVPLNNIRsgqlgee 111
Cdd:cd01125 1 GTLGMLVGPPGSGKSFLALDLA--VAVatgrdwlgerrVKQGRVVYLAAEDPRDGLRRRLKAIGAHLGDEDAA------- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 112 ewakmARRMGEIsdAPLFIDdspNLSLMEIRAKARRLKQRHN-LKLIVIDYLQLMTSGkKVENRQQEVSEFSRQLKLLAK 190
Cdd:cd01125 72 -----LAENLVI--ENLRGK---PVSIDAEAPELERIIEELEgVRLIIIDTLARVLHG-GDENDAADMGAFVAGLDRIAR 140
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 143323855 191 ELNVPVVAISQLNrspeqRSDKKPMLSDLRESGFIEQDADVVILLHREDLYDSQNRSGEADL 252
Cdd:cd01125 141 ETGAAVLLVHHTG-----KDAAGDSQQAARGSSALRGAADAEINLSKMDATEAEKVGLDKDL 197
|
|
| RecA-like_superfamily |
cd01120 |
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ... |
141-226 |
6.26e-03 |
|
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Pssm-ID: 410865 [Multi-domain] Cd Length: 119 Bit Score: 35.94 E-value: 6.26e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 141 IRAKARRLKQRHNLKLIVIDYLQLMtSGKKVENRQQEVSEFSRQLKLLAKELNVPVVAISQlnrSPEQRSDKKPMLSDLR 220
Cdd:cd01120 38 ILEAIEDLIEEKKLDIIIIDSLSSL-ARASQGDRSSELLEDLAKLLRAARNTGITVIATIH---SDKFDIDRGGSSNDER 113
|
....*.
gi 143323855 221 ESGFIE 226
Cdd:cd01120 114 LLKSLR 119
|
|
| KaiC-like_C |
cd19487 |
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
26-135 |
7.64e-03 |
|
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.
Pssm-ID: 410895 [Multi-domain] Cd Length: 219 Bit Score: 36.89 E-value: 7.64e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 26 VKTGFKDLDALTNG-FHPGNMVVLAARPAVGKSTLGLDIARyASIHKRETSVIFSLEMS------RSE---ITMRMLAAE 95
Cdd:cd19487 1 VSSGVPELDELLGGgLERGTSTLLIGPAGVGKSTLALQFAK-AAAARGERSVLFSFDESigtlfeRSEalgIDLRAMVEK 79
|
90 100 110 120
....*....|....*....|....*....|....*....|
gi 143323855 96 ARVPLNNIRSGQLGEEEWAKMARRMGEISDAPLFIDDSPN 135
Cdd:cd19487 80 GLLSIEQIDPAELSPGEFAQRVRTSVEQEDARVVVIDSLN 119
|
|
| Rad51D |
cd19489 |
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
38-216 |
9.06e-03 |
|
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51D, together with the other RAD51 paralogs, RAD51B, RAD51C, XRCC3, and XRCC2, helps recruit RAD51 to the break site.
Pssm-ID: 410897 [Multi-domain] Cd Length: 209 Bit Score: 36.46 E-value: 9.06e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 38 NGFHPGNMVVLAARPAVGKSTLGLDIARYASIHKRETSVIF----SLEMSRseitMRMLaaearvplnnIRSGQLGEEEW 113
Cdd:cd19489 2 GGLRTGEITELVGESSSGKTQLCLTAAANVASRSGQNVLYIdtksSFSARR----LAQI----------LKSRAQDAEEI 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143323855 114 AKMARRMG--EISDAPLFIDDspnlsLMEIRAK--ARRLKQRHNLKLIVIDYL----QLMTSGKKVENRQQEVSEFSRQL 185
Cdd:cd19489 68 DKALQRIRvvRVFDPYELLDL-----LEELRNTlsQQQENLYSRLKLVIIDSLsaliSPLLGGSKHSEGHALLASLARLL 142
|
170 180 190
....*....|....*....|....*....|...
gi 143323855 186 KLLAKELNVPVVAISQLNRSPE--QRSDKKPML 216
Cdd:cd19489 143 KKLAAEYQIAVLVTNLTVRGGDggQQGSTKPAL 175
|
|
| RecA-like |
cd01393 |
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
143-202 |
9.65e-03 |
|
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs RadA and RadB.
Pssm-ID: 410881 [Multi-domain] Cd Length: 185 Bit Score: 36.18 E-value: 9.65e-03
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 143323855 143 AKARRLKQRHNLKLIVID---------YLQLMTSGKKVENRQQEVSEFSRQLKLLAKELNVPVVAISQL 202
Cdd:cd01393 84 SLPESLFPPPNTSLVVVDsvsalfrkaFPRGGDGDSSSSLRARLLSQLARALQKLAAQFNLAVVVTNQV 152
|
|
|