|
Name |
Accession |
Description |
Interval |
E-value |
| DnaB_C |
pfam03796 |
DnaB-like helicase C terminal domain; The hexameric helicase DnaB unwinds the DNA duplex at ... |
1-253 |
7.66e-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: 451.48 E-value: 7.66e-163
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:pfam03796 2 LPTGFTDLDRLTGGLQPGDLIIIAARPSMGKTAFALNIARNAAVKHKKPVAIFSLEMSAEQLVMRLLASEAGVDSQKLRT 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:pfam03796 82 GQLTDEDWEKLAKAAGRLSEAPLYIDDTPGLSIAEIRAKARRLKREHGLGLIVIDYLQLMSGGSRGENRQQEISEISRSL 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRSGEADLNVAKHRNGPTKII 240
Cdd:pfam03796 162 KALAKELNVPVIALSQLSRAVEQRTDKRPQLSDLRESGAIEQDADVVMFLYRDEYYNPKEPEGKAEIIIAKQRNGPTGTV 241
|
250
....*....|...
gi 143295099 241 TVASLLHFAKFAD 253
Cdd:pfam03796 242 KLAFLGEYTRFEN 254
|
|
| DnaB |
TIGR00665 |
replicative DNA helicase; This model describes the helicase DnaB, a homohexameric protein ... |
1-255 |
1.07e-159 |
|
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: 450.34 E-value: 1.07e-159
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:TIGR00665 177 VPTGFTDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMSAEQLVMRMLSSESRVDSQKLRT 256
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:TIGR00665 257 GRLSDEDWEKLTEAAGELSEAPLYIDDTPGLTITELRAKARRLKREHGLGLIVIDYLQLMSGSGRSENRQQEVSEISRSL 336
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYD-SQNRSGEADLNVAKHRNGPTKI 239
Cdd:TIGR00665 337 KALAKELNVPVIALSQLSRSVEQREDKRPQLSDLRESGSIEQDADIVMFLYRDEYYNpDSEDKGIAEIIIAKQRNGPTGT 416
|
250
....*....|....*.
gi 143295099 240 ITVASLLHFAKFADMA 255
Cdd:TIGR00665 417 VKLAFLGEYTRFENLA 432
|
|
| DnaB |
COG0305 |
Replicative DNA helicase [Replication, recombination and repair]; |
1-255 |
2.11e-157 |
|
Replicative DNA helicase [Replication, recombination and repair];
Pssm-ID: 440074 [Multi-domain] Cd Length: 429 Bit Score: 444.52 E-value: 2.11e-157
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:COG0305 174 VPTGFTDLDKLTGGLQPGDLIILAARPSMGKTAFALNIARNAAIKEGKPVAIFSLEMSAEQLVMRLLSSEARIDSSKLRT 253
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:COG0305 254 GKLSDEDWERLSSAAGELSEAPIYIDDTPGLTIAEIRAKARRLKREHGLGLIVIDYLQLMSGSGRSENRQQEISEISRSL 333
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQN-RSGEADLNVAKHRNGPTKI 239
Cdd:COG0305 334 KALAKELNVPVIALSQLSRAVEQRTDKRPQLSDLRESGSIEQDADVVMFLYRDEYYNPDSeDKGIAEIIIAKQRNGPTGT 413
|
250
....*....|....*.
gi 143295099 240 ITVASLLHFAKFADMA 255
Cdd:COG0305 414 VKLAFDGEYTRFENLA 429
|
|
| PRK05636 |
PRK05636 |
replicative DNA helicase; Provisional |
1-255 |
1.73e-143 |
|
replicative DNA helicase; Provisional
Pssm-ID: 180177 [Multi-domain] Cd Length: 505 Bit Score: 411.93 E-value: 1.73e-143
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK05636 248 IPTGFKDLDDLTNGLRGGQMIIVAARPGVGKSTLALDFMRSASIKHNKASVIFSLEMSKSEIVMRLLSAEAEVRLSDMRG 327
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:PRK05636 328 GKMDEDAWEKLVQRLGKIAQAPIFIDDSANLTMMEIRSKARRLKQKHDLKLIVVDYLQLMSSGKRVESRQQEVSEFSRQL 407
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQN-RSGEADLNVAKHRNGPTKI 239
Cdd:PRK05636 408 KLLAKELDVPLIAISQLNRGPESRTDKRPQLADLRESGSLEQDADMVMLLYRPDSQDKDDeRAGEADIILAKHRGGPIDT 487
|
250
....*....|....*.
gi 143295099 240 ITVASLLHFAKFADMA 255
Cdd:PRK05636 488 VQVAHQLHYSRFVDMA 503
|
|
| DnaB_C |
cd00984 |
C-terminal domain of DnaB helicase; DnaB helicase C-terminal domain. The hexameric helicase ... |
1-253 |
1.12e-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: 395.34 E-value: 1.12e-140
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:cd00984 2 LPTGFTDLDKLTGGLQPGDLIIIAARPSMGKTAFALNIAENIALDEGLPVLFFSLEMSAEQLAERLLSSESGVSLSKLRT 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRH-DLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQ 159
Cdd:cd00984 82 GRLDDEDWERLTAAMGELSELPLYIDDTPGLTVDEIRAKARRLKREHgGLGLIVIDYLQLIRGSKRAENRQQEVAEISRS 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 160 LKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQN-RSGEADLNVAKHRNGPTK 238
Cdd:cd00984 162 LKALAKELNVPVIALSQLNRGVESRTDKRPMLSDLRESGSIEQDADVVIFLYRDEYYDKDSeDKGIAEIIIAKNRNGPTG 241
|
250
....*....|....*
gi 143295099 239 IITVASLLHFAKFAD 253
Cdd:cd00984 242 TVYLAFNPEYTRFTD 256
|
|
| PRK07773 |
PRK07773 |
replicative DNA helicase; Validated |
1-210 |
2.57e-120 |
|
replicative DNA helicase; Validated
Pssm-ID: 236093 [Multi-domain] Cd Length: 886 Bit Score: 364.07 E-value: 2.57e-120
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK07773 200 VPTGFTELDAMTNGLHPGQLIIVAARPSMGKTTFGLDFARNCAIRHRLAVAIFSLEMSKEQLVMRLLSAEAKIKLSDMRS 279
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:PRK07773 280 GRMSDDDWTRLARAMGEISEAPIFIDDTPNLTVMEIRAKARRLRQEANLGLIVVDYLQLMTSGKKYENRQQEVSEISRHL 359
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEqdADVVILL 210
Cdd:PRK07773 360 KLLAKELEVPVVALSQLSRGVEQRTDKRPMLSDLRESGCLT--GDTLILR 407
|
|
| PRK05748 |
PRK05748 |
replicative DNA helicase; Provisional |
1-258 |
5.58e-118 |
|
replicative DNA helicase; Provisional
Pssm-ID: 180232 [Multi-domain] Cd Length: 448 Bit Score: 345.02 E-value: 5.58e-118
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK05748 186 IPTGFTDLDKMTSGLQPNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMGAESLVMRMLCAEGNIDAQRLRT 265
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRH-DLKLVVIDYLQLMT-SGKKVENRQQEVSEFSR 158
Cdd:PRK05748 266 GQLTDDDWPKLTIAMGSLSDAPIYIDDTPGIKVTEIRARCRRLAQEHgGLGLILIDYLQLIQgSGRSGENRQQEVSEISR 345
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 159 QLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYD--SQNRsGEADLNVAKHRNGP 236
Cdd:PRK05748 346 SLKALAKELKVPVIALSQLSRGVEQRQDKRPVMSDIRESGSIEQDADIVAFLYRDDYYDeeTENK-NTIEIIIAKQRNGP 424
|
250 260
....*....|....*....|..
gi 143295099 237 TKIITVASLLHFAKFADMAPKY 258
Cdd:PRK05748 425 VGTVELAFQKEYNKFVNLARRE 446
|
|
| PRK05595 |
PRK05595 |
replicative DNA helicase; Provisional |
1-256 |
3.88e-101 |
|
replicative DNA helicase; Provisional
Pssm-ID: 235525 [Multi-domain] Cd Length: 444 Bit Score: 302.13 E-value: 3.88e-101
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK05595 184 VASGFRELDAKTSGFQKGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLEMSKEQLAYKLLCSEANVDMLRLRT 263
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:PRK05595 264 GNLEDKDWENIARASGPLAAAKIFIDDTAGVSVMEMRSKCRRLKIEHGIDMILIDYLQLMSGGKGSESRQQEVSEISRSI 343
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNR-SGEADLNVAKHRNGPTKI 239
Cdd:PRK05595 344 KALAKEMECPVIALSQLSRAPEQRADHRPMLSDLRESGSIEQDADVVMFLYRDEYYNKETEdKNVAECIIAKQRNGPTGT 423
|
250
....*....|....*..
gi 143295099 240 ITVASLLHFAKFADMAP 256
Cdd:PRK05595 424 VKLAWLGQYSKFGNLDV 440
|
|
| PRK09165 |
PRK09165 |
replicative DNA helicase; Provisional |
1-263 |
4.59e-100 |
|
replicative DNA helicase; Provisional
Pssm-ID: 181676 [Multi-domain] Cd Length: 497 Bit Score: 301.03 E-value: 4.59e-100
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAA--------------IHNGECSVIFSLEMSRSEITMRM 66
Cdd:PRK09165 200 ISTGLRDLDSKLGGLHPSDLIILAGRPSMGKTALATNIAFNAAkayrreaqpdgskkAVNGGVVGFFSLEMSAEQLATRI 279
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 67 LSAEARVALNNIRSGSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKV 146
Cdd:PRK09165 280 LSEQSEISSSKIRRGKISEEDFEKLVDASQELQKLPLYIDDTPALSISQLRARARRLKRQHGLDLLVVDYLQLIRGSSKR 359
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 147 --ENRQQEVSEFSRQLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLY-------- 216
Cdd:PRK09165 360 ssDNRVQEISEITQGLKALAKELNIPVIALSQLSRQVEQRDDKRPQLSDLRESGSIEQDADVVMFVYREEYYlkrkepre 439
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|....*..
gi 143295099 217 ---------DSQNR-SGEADLNVAKHRNGPTKIITVASLLHFAKFADMAPKYTTPQE 263
Cdd:PRK09165 440 gtpkheewqEKMEKvHNKAEVIIAKQRHGPTGTVKLAFESEFTRFGDLADRSQLPEE 496
|
|
| PRK08506 |
PRK08506 |
replicative DNA helicase; Provisional |
1-259 |
4.94e-97 |
|
replicative DNA helicase; Provisional
Pssm-ID: 236278 [Multi-domain] Cd Length: 472 Bit Score: 292.30 E-value: 4.94e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAaIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK08506 175 LDTGFVELNKMTKGFNKGDLIIIAARPSMGKTTLCLNMALKA-LNQDKGVAFFSLEMPAEQLMLRMLSAKTSIPLQNLRT 253
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRH-DLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQ 159
Cdd:PRK08506 254 GDLDDDEWERLSDACDELSKKKLFVYDSGYVNIHQVRAQLRKLKSQHpEIGLAVIDYLQLMSGSGNFKDRHLQISEISRG 333
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 160 LKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLY----------------------D 217
Cdd:PRK08506 334 LKLLARELDIPIIALSQLNRSLESRADKRPMLSDLRESGAIEQDADIILFVYRDDVYkereekekekkakkegkeerriH 413
|
250 260 270 280
....*....|....*....|....*....|....*....|...
gi 143295099 218 SQNRSGE-ADLNVAKHRNGPTKIITVASLLHFAKFADMAPKYT 259
Cdd:PRK08506 414 FQNKSIEeAEIIIGKNRNGPTGTVKLRFQKEFTRFVDKPIESH 456
|
|
| phage_DnaB |
TIGR03600 |
phage replicative helicase, DnaB family, HK022 subfamily; Members of this family are phage (or ... |
1-237 |
2.44e-94 |
|
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: 283.91 E-value: 2.44e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:TIGR03600 176 LSTGLPKLDRLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEMSAEQLGERLLASKSGINTGNIRT 255
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHD-LKLVVIDYLQLMTSGKKvENRQQEVSEFSRQ 159
Cdd:TIGR03600 256 GRFNDSEFNRLLNAVDRLSEKDLYIDDTGGLTVAQIRSIARRIKRKKGgLDLIVVDYIQLMAPARG-RDRNEELGGISRG 334
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 143295099 160 LKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYD-SQNRSGEADLNVAKHRNGPT 237
Cdd:TIGR03600 335 LKALAKELDVPVVLLAQLNRGSEKRTDKRPIMSDLRDSGAIEQDADVIGLIHREGYYDaREPPAGIAELILAKNRHGPT 413
|
|
| PRK08760 |
PRK08760 |
replicative DNA helicase; Provisional |
1-255 |
3.00e-90 |
|
replicative DNA helicase; Provisional
Pssm-ID: 181547 [Multi-domain] Cd Length: 476 Bit Score: 275.26 E-value: 3.00e-90
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK08760 212 LPTGYNDFDAMTAGLQPTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMSASQLAMRLISSNGRINAQRLRT 291
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:PRK08760 292 GALEDEDWARVTGAIKMLKETKIFIDDTPGVSPEVLRSKCRRLKREHDLGLIVIDYLQLMSVPGNSENRATEISEISRSL 371
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRS--GEADLNVAKHRNGPTK 238
Cdd:PRK08760 372 KGLAKELNVPVIALSQLNRSLETRTDKRPVMADLRESGAIEQDADMIVFIYRDDYYNKENSPdkGLAEIIIGKHRGGPTG 451
|
250
....*....|....*..
gi 143295099 239 IITVASLLHFAKFADMA 255
Cdd:PRK08760 452 SCKLKFFGEYTRFDNLA 468
|
|
| PRK07004 |
PRK07004 |
replicative DNA helicase; Provisional |
1-256 |
2.75e-88 |
|
replicative DNA helicase; Provisional
Pssm-ID: 235907 [Multi-domain] Cd Length: 460 Bit Score: 269.86 E-value: 2.75e-88
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK07004 196 TPTGFVDLDRMTSGMHGGELIIVAGRPSMGKTAFSMNIGEYVAVEYGLPVAVFSMEMPGTQLAMRMLGSVGRLDQHRMRT 275
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRL-KQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQ 159
Cdd:PRK07004 276 GRLTDEDWPKLTHAVQKMSEAQLFIDETGGLNPMELRSRARRLaRQCGKLGLIIIDYLQLMSGSSQGENRATEISEISRS 355
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 160 LKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLY--DSQNRsGEADLNVAKHRNGPT 237
Cdd:PRK07004 356 LKSLAKELDVPVIALSQLNRGLEQRPNKRPVMSDLRESGAIEQDADVILFIYRDEVYnpDSPDK-GTAEIIIGKQRNGPI 434
|
250
....*....|....*....
gi 143295099 238 KIITVASLLHFAKFADMAP 256
Cdd:PRK07004 435 GPVRLTFLGQYTKFDNFAG 453
|
|
| PRK08840 |
PRK08840 |
replicative DNA helicase; Provisional |
1-255 |
5.25e-81 |
|
replicative DNA helicase; Provisional
Pssm-ID: 181562 [Multi-domain] Cd Length: 464 Bit Score: 251.06 E-value: 5.25e-81
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK08840 200 VDTGFTDLNKKTAGLQGSDLIIVAARPSMGKTTFAMNLCENAAMDQDKPVLIFSLEMPAEQLMMRMLASLSRVDQTKIRT 279
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAP-LFIDDSPNLSMMEIRAKARRLKQRHD-LKLVVIDYLQLMTSGKKVENRQQEVSEFSR 158
Cdd:PRK08840 280 GQLDDEDWARISSTMGILMEKKnMYIDDSSGLTPTEVRSRARRIAREHGgLSMIMVDYLQLMRVPALSDNRTLEIAEISR 359
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 159 QLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQ-NRSGEADLNVAKHRNGPT 237
Cdd:PRK08840 360 SLKALAKELNVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYNPDsPLKGTAEIIIGKQRNGPI 439
|
250
....*....|....*...
gi 143295099 238 KIITVASLLHFAKFADMA 255
Cdd:PRK08840 440 GSVRLTFQGQYSRFDNYA 457
|
|
| PRK06321 |
PRK06321 |
replicative DNA helicase; Provisional |
1-256 |
1.08e-79 |
|
replicative DNA helicase; Provisional
Pssm-ID: 180528 [Multi-domain] Cd Length: 472 Bit Score: 247.83 E-value: 1.08e-79
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK06321 209 IPTHFIDLDKMINGFSPSNLMILAARPAMGKTALALNIAENFCFQNRLPVGIFSLEMTVDQLIHRIICSRSEVESKKISV 288
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSG---KKVENRQQEVSEFS 157
Cdd:PRK06321 289 GDLSGRDFQRIVSVVNEMQEHTLLIDDQPGLKITDLRARARRMKESYDIQFLIIDYLQLLSGSgnlRNSESRQTEISEIS 368
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 158 RQLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRSGEADLNVAKHRNGPT 237
Cdd:PRK06321 369 RMLKNLARELNIPILCLSQLSRKVEDRANHRPMMSDLRESGSIEQDSDLVMFLLRREYYDPNDKPGTAELIVAKNRHGSI 448
|
250
....*....|....*....
gi 143295099 238 KIITVASLLHFAKFADMAP 256
Cdd:PRK06321 449 GSVPLVFEKEFARFRNYAA 467
|
|
| PRK08006 |
PRK08006 |
replicative DNA helicase DnaB; |
1-258 |
3.36e-79 |
|
replicative DNA helicase DnaB;
Pssm-ID: 181193 [Multi-domain] Cd Length: 471 Bit Score: 246.84 E-value: 3.36e-79
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK08006 207 VNTGYDDLNKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSLEMPGEQIMMRMLASLSRVDQTRIRT 286
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDDEWSKLARRMG-EINDAPLFIDDSPNLSMMEIRAKARRLKQRHD-LKLVVIDYLQLMTSGKKVENRQQEVSEFSR 158
Cdd:PRK08006 287 GQLDDEDWARISGTMGiLLEKRNMYIDDSSGLTPTEVRSRARRIFREHGgLSLIMIDYLQLMRVPSLSDNRTLEIAEISR 366
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 159 QLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLY-DSQNRSGEADLNVAKHRNGPT 237
Cdd:PRK08006 367 SLKALAKELQVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYhENSDLKGIAEIIIGKQRNGPI 446
|
250 260
....*....|....*....|..
gi 143295099 238 KIITVASLLHFAKFADMA-PKY 258
Cdd:PRK08006 447 GTVRLTFNGQWSRFDNYAgPQY 468
|
|
| PRK06904 |
PRK06904 |
replicative DNA helicase; Validated |
1-255 |
1.60e-77 |
|
replicative DNA helicase; Validated
Pssm-ID: 136106 [Multi-domain] Cd Length: 472 Bit Score: 242.59 E-value: 1.60e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK06904 204 VTTGFTDLDKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFSLEMPAEQIMMRMLASLSRVDQTKIRT 283
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GSLSDD-EWSKLARRMGEINDAP-LFIDDSPNLSMMEIRAKARRL-KQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFS 157
Cdd:PRK06904 284 GQNLDQqDWAKISSTVGMFKQKPnLYIDDSSGLTPTELRSRARRVyRENGGLSLIMVDYLQLMRAPGFEDNRTLEIAEIS 363
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 158 RQLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYD--SQNRSGEADLNVAKHRNG 235
Cdd:PRK06904 364 RSLKALAKELKVPVVALSQLNRTLENRGDKRPVNSDLRESGSIEQDADLIMFIYRDEVYNetTEDNKGVAEIIIGKQRNG 443
|
250 260
....*....|....*....|
gi 143295099 236 PTKIITVASLLHFAKFADMA 255
Cdd:PRK06904 444 PIGRVRLAFQGQYSRFDNLA 463
|
|
| PRK06749 |
PRK06749 |
replicative DNA helicase; Provisional |
1-254 |
5.18e-76 |
|
replicative DNA helicase; Provisional
Pssm-ID: 168658 [Multi-domain] Cd Length: 428 Bit Score: 237.15 E-value: 5.18e-76
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAiHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK06749 169 IETGYTSLNKMTCGLQEGDFVVLGARPSMGKTAFALNVGLHAA-KSGAAVGLFSLEMSSKQLLKRMASCVGEVSGGRLKN 247
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 GS--LSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLK--LVVIDYLQLMTSGKKVE-NRQQEVSE 155
Cdd:PRK06749 248 PKhrFAMEDWEKVSKAFAEIGELPLEIYDNAGVTVQDIWMQTRKLKRKHGDKkiLIIVDYLQLITGDPKHKgNRFQEISE 327
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 156 FSRQLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRSGE-ADLNVAKHRN 234
Cdd:PRK06749 328 ISRKLKLLARELNVCVVALSQLSRSVESRQDKRPLLSDLRETGQIEQDADVIMLMYREDYYDKETMQKEmTEIHVAKHRN 407
|
250 260
....*....|....*....|
gi 143295099 235 GPTKIITVASLLHFAKFADM 254
Cdd:PRK06749 408 GPVGSFKLRFLKEFGRFVEG 427
|
|
| RecA-like_Gp4D_helicase |
cd19483 |
RecA-like domain of Escherichia coli bacteriophage T7 Gp4D helicase; This family includes the ... |
21-222 |
1.23e-20 |
|
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: 87.63 E-value: 1.23e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 21 IVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRSGSLSDDEWSKLARRMGEIND 100
Cdd:cd19483 1 VTIGAGSGIGKSTIVRELAYHLITEHGEKVGIISLEESVEETAKGLAGKHLGKPEPLELPRDDITEEEEDDAFDNELGSG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 101 APLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSG--KKVENRQQEvsEFSRQLKLLAKELNVPVVAISQLN 178
Cdd:cd19483 81 RFFLYDHFGSLDWDNLKEKIRYMVKVLGCKVIVLDHLTILVSGldSSDERKELD--EIMTELAALVKELGVTIILVSHLR 158
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|.
gi 143295099 179 RsPEQRAD----KKPLLSDLRESGSIEQDADVVILLHRD---DLYDSQNRS 222
Cdd:cd19483 159 R-PGGGKGheegGEVSESDLRGSSAIAQLSDYVIGLERNkqaDDPVERNTT 208
|
|
| PRK07773 |
PRK07773 |
replicative DNA helicase; Validated |
199-255 |
3.23e-20 |
|
replicative DNA helicase; Validated
Pssm-ID: 236093 [Multi-domain] Cd Length: 886 Bit Score: 89.81 E-value: 3.23e-20
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 143295099 199 SIEQDADVVILLHRDDLYDSQN-RSGEADLNVAKHRNGPTKIITVASLLHFAKFADMA 255
Cdd:PRK07773 827 SIEQDADVVILLYRPDYYDRDDpRGGEAEFIVAKHRNGPTGTVTLAFQLHLSRFANLA 884
|
|
| RAD55 |
COG0467 |
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms]; |
1-236 |
1.95e-17 |
|
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
Pssm-ID: 440235 [Multi-domain] Cd Length: 221 Bit Score: 78.80 E-value: 1.95e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTN-GFHPGNMIVIAARPAVGKSTLGLDIARNAAiHNGECSVIFSLEMSRSEITMRMLSAEARVAlNNIR 79
Cdd:COG0467 2 VPTGIPGLDELLGgGLPRGSSTLLSGPPGTGKTTLALQFLAEGL-RRGEKGLYVSFEESPEQLLRRAESLGLDLE-EYIE 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 80 SGSLSddewsklarrmgeindaplFIDDSP---NLSMMEIRAKARRLKQRHDLKLVVID----YLQLMTSgkkvenrQQE 152
Cdd:COG0467 80 SGLLR-------------------IIDLSPeelGLDLEELLARLREAVEEFGAKRVVIDslsgLLLALPD-------PER 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 153 VSEFSRQLKLLAKELNVPVVAISQlnrspeqradkKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRSgeadLNVAKH 232
Cdd:COG0467 134 LREFLHRLLRYLKKRGVTTLLTSE-----------TGGLEDEATEGGLSYLADGVILLRYVELGGELRRA----LSVLKM 198
|
....
gi 143295099 233 RNGP 236
Cdd:COG0467 199 RGSA 202
|
|
| PRK05973 |
PRK05973 |
replicative DNA helicase; Provisional |
15-195 |
6.73e-16 |
|
replicative DNA helicase; Provisional
Pssm-ID: 168322 [Multi-domain] Cd Length: 237 Bit Score: 74.69 E-value: 6.73e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 15 FHPGNMIVIAARPAVGKSTLGLDIARnAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNnirsgslsddewsklarr 94
Cdd:PRK05973 61 LKPGDLVLLGARPGHGKTLLGLELAV-EAMKSGRTGVFFTLEYTEQDVRDRLRALGADRAQF------------------ 121
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 95 mgeindAPLFIDDSPNlsmmEIRAK--ARRLKQRHDLKLVVIDYLQLMTsgkkvENRQQ-EVSEFSRQLKLLAKELNVPV 171
Cdd:PRK05973 122 ------ADLFEFDTSD----AICADyiIARLASAPRGTLVVIDYLQLLD-----QRREKpDLSVQVRALKSFARERGLII 186
|
170 180
....*....|....*....|....
gi 143295099 172 VAISQLNRSPEQRADKKPLLSDLR 195
Cdd:PRK05973 187 VFISQIDRSFDPSAKPLPDIRDVR 210
|
|
| RepA |
COG3598 |
RecA-family ATPase [Replication, recombination and repair]; |
18-237 |
1.66e-12 |
|
RecA-family ATPase [Replication, recombination and repair];
Pssm-ID: 442817 [Multi-domain] Cd Length: 313 Bit Score: 66.08 E-value: 1.66e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 18 GNMIVIAARPAVGKSTLGLDIArnAAIHNGE---------CSVIF-SLEMSRSEITMRMLSAEARValnnirsgslsDDE 87
Cdd:COG3598 13 GGVTLLAGPPGTGKSFLALQLA--AAVAAGGpwlgrrvppGKVLYlAAEDDRGELRRRLKALGADL-----------GLP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 88 WSKLARRMGEINDAPLFIDDSpnlSMMEIRAKARrlkqRHDLKLVVIDYLQLMTSGKkvENRQQEVSEFSRQLKLLAKEL 167
Cdd:COG3598 80 FADLDGRLRLLSLAGDLDDTD---DLEALERAIE----EEGPDLVVIDPLARVFGGD--ENDAEEMRAFLNPLDRLAERT 150
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 168 NVPVVAISQLNRSpeqrADKKPLLSDLRESGSIEQDADVVILLHRDDlyDSQNRSgeadLNVAKHRNGPT 237
Cdd:COG3598 151 GAAVLLVHHTGKG----GAGKDSGDRARGSSALRGAARSVLVLSREK--GEDLRV----LTRAKSNYGPE 210
|
|
| AAA_25 |
pfam13481 |
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins. |
21-182 |
5.82e-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: 5.82e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 21 IVIAARPAVGKSTLGLD----IARNAAIHNGECS------VIFSLEMSRSEITMRMLSAEARvalnnirsgsLSDDEWSK 90
Cdd:pfam13481 36 GLLAGAPGTGKTTLALDlaaaVATGKPWLGGPRVpeqgkvLYVSAEGPADELRRRLRAAGAD----------LDLPARLL 105
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 91 LARRMGEIndaPLFIDDSPNLSMME-IRAKARRLKQRHDLKLVVIDYLQLMTSGkkVENRQQEVSEFSRQLKLLAKELNV 169
Cdd:pfam13481 106 FLSLVESL---PLFFLDRGGPLLDAdVDALEAALEEVEDPDLVVIDPLARALGG--DENSNSDVGRLVKALDRLARRTGA 180
|
170
....*....|...
gi 143295099 170 PVVAISQLNRSPE 182
Cdd:pfam13481 181 TVLLVHHVGKDGA 193
|
|
| KaiC-like |
cd01124 |
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ... |
1-236 |
6.96e-11 |
|
Circadian Clock Protein KaiC; 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: 410869 [Multi-domain] Cd Length: 222 Bit Score: 60.36 E-value: 6.96e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTN-GFHPGNMIVIAARPAVGKSTLGLDIARNAAIhNGECSVIFSLEMSRSEITMRMLSAearvalnnir 79
Cdd:cd01124 1 VKTGIPGLDELLGgGIPKGSVTLLTGGPGTGKTLFGLQFLYAGAK-NGEPGLFFTFEESPERLLRNAKSF---------- 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 80 sgslsddEWSKlarRMGEINDApLFIDDSPNLSMM-----EIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQevs 154
Cdd:cd01124 70 -------GWDF---DEMEDEGK-LIIVDAPPTEAGrfsldELLSRILSIIKSFKAKRVVIDSLSGLRRAKEDQMRAR--- 135
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 155 EFSRQLKLLAKELNVPVVAISQLNRSPEQRAdkkpllsdlRESGSIEQDADVVILLHRDDLYDSQNRSgeadLNVAKHRN 234
Cdd:cd01124 136 RIVIALLNELRAAGVTTIFTSEMRSFLSSES---------AGGGDVSFIVDGVILLRYVEIEGELRRT----IRVLKMRG 202
|
..
gi 143295099 235 GP 236
Cdd:cd01124 203 TG 204
|
|
| RadA_SMS_N |
cd01121 |
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ... |
1-172 |
5.54e-07 |
|
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: 49.45 E-value: 5.54e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLD-SLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIfSLEMSRSEITMRmlsaearvalnnir 79
Cdd:cd01121 64 ISTGIGELDrVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAQRGGKVLYV-SGEESLSQIKLR-------------- 128
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 80 sgslsddewsklARRMGeINDAPLFIddSPNLSMMEIRAKARRLKqrhdLKLVVIDYLQLMTSgKKVENRQQEVS---EF 156
Cdd:cd01121 129 ------------AERLG-LGSDNLYL--LAETNLEAILAEIEELK----PSLVVIDSIQTVYS-PELTSSPGSVSqvrEC 188
|
170
....*....|....*.
gi 143295099 157 SRQLKLLAKELNVPVV 172
Cdd:cd01121 189 AAELLRLAKETGIPVF 204
|
|
| KaiC-like_C |
cd19487 |
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
1-129 |
1.66e-06 |
|
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: 47.68 E-value: 1.66e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNG-FHPGNMIVIAARPAVGKSTLGLDIARnAAIHNGECSVIFSLEMS------RSE---ITMRMLSAE 70
Cdd:cd19487 1 VSSGVPELDELLGGgLERGTSTLLIGPAGVGKSTLALQFAK-AAAARGERSVLFSFDESigtlfeRSEalgIDLRAMVEK 79
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 143295099 71 ARVALNNIRSGSLSDDEWSKLARRMGEINDAPLFIDDSPN---LSMMEIRAKARrlkQRHDL 129
Cdd:cd19487 80 GLLSIEQIDPAELSPGEFAQRVRTSVEQEDARVVVIDSLNgylNAMPDERFLIL---QMHEL 138
|
|
| 41 |
PHA02542 |
41 helicase; Provisional |
22-205 |
2.44e-06 |
|
41 helicase; Provisional
Pssm-ID: 222864 [Multi-domain] Cd Length: 473 Bit Score: 48.13 E-value: 2.44e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 22 VIAARPAVGKStLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRsgslsDDEWSKLARRMGEI--- 98
Cdd:PHA02542 194 VLLAGVNVGKS-LGLCSLAADYLQQGYNVLYISMEMAEEVIAKRIDANLLDVSLDDID-----DLSKAEYKAKMEKLrsk 267
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 99 NDAPLFIDDSPNLSMM--EIRAKARRLKQRHDLK--LVVIDYLQLMTSGK---KVENRQQEVSEFSRQLKLLAKELNVPV 171
Cdd:PHA02542 268 TQGKLIIKQYPTGGAHagHFRALLNELKLKKNFKpdVIIVDYLGICASSRlrvSSENSYTYVKAIAEELRGLAVEHDVVV 347
|
170 180 190
....*....|....*....|....*....|....
gi 143295099 172 VAISQLNRSPEQRADkkPLLSDLRESGSIEQDAD 205
Cdd:PHA02542 348 WTAAQTTRSGWDSSD--VDMSDTAESAGLPATAD 379
|
|
| RepA_RSF1010_like |
cd01125 |
Hexameric Replicative Helicase RepA of plasmid RSF1010 and related proteins; This family ... |
22-228 |
2.16e-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: 2.16e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 22 VIAARPAVGKSTLGLDIA---------RNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRsgslsddewsklA 92
Cdd:cd01125 5 MLVGPPGSGKSFLALDLAvavatgrdwLGERRVKQGRVVYLAAEDPRDGLRRRLKAIGAHLGDEDAA------------L 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 93 RRMGEINDAPLFiddspNLSMMEIRAKARRLKQRH-DLKLVVIDYLQLMTSGkKVENRQQEVSEFSRQLKLLAKELNVPV 171
Cdd:cd01125 73 AENLVIENLRGK-----PVSIDAEAPELERIIEELeGVRLIIIDTLARVLHG-GDENDAADMGAFVAGLDRIARETGAAV 146
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*..
gi 143295099 172 VAISQLNrspeqRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRSGEADLN 228
Cdd:cd01125 147 LLVHHTG-----KDAAGDSQQAARGSSALRGAADAEINLSKMDATEAEKVGLDKDLR 198
|
|
| PRK09302 |
PRK09302 |
circadian clock protein KaiC; Reviewed |
1-68 |
4.99e-05 |
|
circadian clock protein KaiC; Reviewed
Pssm-ID: 236461 [Multi-domain] Cd Length: 509 Bit Score: 44.10 E-value: 4.99e-05
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 143295099 1 IKTGFKDLDS-LTNGFHPGNMIVIAARPAVGKSTLGLDIArNAAIHNGECSVIFSLEMSRSEITMRMLS 68
Cdd:PRK09302 255 ISSGVPDLDEmLGGGFFRGSIILVSGATGTGKTLLASKFA-EAACRRGERCLLFAFEESRAQLIRNARS 322
|
|
| Rad51B |
cd19493 |
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
9-181 |
6.09e-05 |
|
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: 43.08 E-value: 6.09e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 9 DSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECS-----VIFSLEMSRSEITMRmLSAEARVALNNIRSGSL 83
Cdd:cd19493 2 TALAGGLPLGAITEITGASGSGKTQFALTLASSAAMPARKGGldggvLYIDTESKFSAERLA-EIAEARFPEAFSGFMEE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 84 SDDEwSKLARRMG--EINDAPLFIDDSPNL--SMMEirakarrlkqrHDLKLVVIDYLQLM------TSGKKVENRQQEV 153
Cdd:cd19493 81 NERA-EEMLKRVAvvRVTTLAQLLERLPNLeeHILS-----------SGVRLVVIDSIAALvrrefgGSDGEVTERHNAL 148
|
170 180
....*....|....*....|....*...
gi 143295099 154 SEFSRQLKLLAKELNVPVVAISQLNRSP 181
Cdd:cd19493 149 AREASSLKRLAEEFRIAVLVTNQATTHF 176
|
|
| KaiC_C |
cd19484 |
C-terminal domain of Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most ... |
1-68 |
1.11e-04 |
|
C-terminal domain of Circadian Clock Protein KaiC; 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: 410892 [Multi-domain] Cd Length: 218 Bit Score: 42.31 E-value: 1.11e-04
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTN--GFHPGNMIVIAARPAVGKSTLGLDIArNAAIHNGECSVIFSLEMSRSEITMRMLS 68
Cdd:cd19484 1 ISTGIPRLDAMLGggGFFRGSSILVSGATGTGKTLLAASFA-DAACRRGERCLYFAFEESPAQLIRNAKS 69
|
|
| RecA-like |
cd01393 |
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
18-177 |
4.20e-04 |
|
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: 40.41 E-value: 4.20e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 18 GNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVI---FSLEMSRSEitmRMLSA------EARVALNNIRSGSLSDDEW 88
Cdd:cd01393 1 GKITEIYGPPGSGKTQLALQLAANALLLGGGVVWIdteGAFPPSRLV---QILEAspsselELAEALSRLLYFRPPDTLA 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 89 SKLArrmgeINDAPLFIDDSPNLSmmeirakarrlkqrhdlkLVVID---------YLQLMTSGKKVENRQQEVSEFSRQ 159
Cdd:cd01393 78 HLLA-----LDSLPESLFPPPNTS------------------LVVVDsvsalfrkaFPRGGDGDSSSSLRARLLSQLARA 134
|
170
....*....|....*...
gi 143295099 160 LKLLAKELNVPVVAISQL 177
Cdd:cd01393 135 LQKLAAQFNLAVVVTNQV 152
|
|
| RecA-like_superfamily |
cd01120 |
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ... |
116-201 |
1.62e-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: 37.48 E-value: 1.62e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 116 IRAKARRLKQRHDLKLVVIDYLQLMtSGKKVENRQQEVSEFSRQLKLLAKELNVPVVAISQlnrSPEQRADKKPLLSDLR 195
Cdd:cd01120 38 ILEAIEDLIEEKKLDIIIIDSLSSL-ARASQGDRSSELLEDLAKLLRAARNTGITVIATIH---SDKFDIDRGGSSNDER 113
|
....*.
gi 143295099 196 ESGSIE 201
Cdd:cd01120 114 LLKSLR 119
|
|
| KaiC-like_N |
cd19488 |
N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
1-233 |
2.44e-03 |
|
N-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: 410896 [Multi-domain] Cd Length: 225 Bit Score: 38.48 E-value: 2.44e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDS-LTNGFHPGNMIVIAARPAVGKSTLGLDIARnAAIHNGECSVIFSLEMSRSEItmRMLSAEARVALNNIR 79
Cdd:cd19488 1 ISTGIPGLDDiLRGGLPPRRLYLVEGAPGTGKTTLALQFLL-EGAANGETGLYITLSETEQEL--RAVALSHGWSLDGIH 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 80 SGSLSDDEwSKLArrmgeiNDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQlmtsgkkvENRQ--QEVSEFS 157
Cdd:cd19488 78 IFELSPSE-SALD------AAQQYTILHPSELELSETTRLIFERVERLKPSRVVIDSLS--------ELRLlaQDSLRYR 142
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 158 RQlkllakelnvpVVAISQLnrspEQRADKKPLLSDLRESGSIEQD----ADVVILL-HRDDLYDSQNRSgeadLNVAKH 232
Cdd:cd19488 143 RQ-----------ILALKQF----FAGRNTTVLLLDDLTSDAADLDlhsiAHGVIRLeQLESDYGAARRR----LRVSKM 203
|
.
gi 143295099 233 R 233
Cdd:cd19488 204 R 204
|
|
| Twinkle_C |
cd01122 |
C-terminal domain of Twinkle; Twinkle ( T7 gp4-like protein with intramitochondrial nucleoid ... |
5-233 |
7.80e-03 |
|
C-terminal domain of Twinkle; Twinkle ( T7 gp4-like protein with intramitochondrial nucleoid localization, also known as C10orf2, PEO1, SCA8, ATXN8, IOSCA, PEOA3 or SANDO) is a homohexameric DNA helicases which unwinds short stretches of double-stranded DNA in the 5' to 3' direction and, along with mitochondrial single-stranded DNA binding protein and mtDNA polymerase gamma, is thought to play a key role in mtDNA replication. Mutations in the human gene cause infantile onset spinocerebellar ataxia (IOSCA) and progressive external ophthalmoplegia (PEO) and are also associated with several mitochondrial depletion syndromes. This group also contains viral GP4-like and related bacterial helicases.
Pssm-ID: 410867 Cd Length: 266 Bit Score: 36.83 E-value: 7.80e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 5 FKDLDSLTNGFHPGNMIVIAARPAVGKST----LGLDIARNaaihnGECSVIFSLEMSRSEITMRMLSAEARVALNNIRs 80
Cdd:cd01122 30 FPSLNKLLKGHRRGELTIFTGPTGSGKTTflseYSLDLCMQ-----GVNTLWGSFEIKNVRLAKTMLTQFAGKNLEDNL- 103
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 81 gsLSDDEWSKlarrmgEINDAPL-FIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSG-----KKVENRQQEVS 154
Cdd:cd01122 104 --REFDEWAD------KFELLPMyFMKFHGSTDIDEVLDAMEHAVYVYDIQHIVIDNLQFMMGTqasgsDRFELQDLIIG 175
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 155 EFSRqlklLAKELNVPVVAISQlnrsPEQRADKKPL-LSDLRESGSIEQDADVVILLHRDDLYDSQNRSGeadLNVAKHR 233
Cdd:cd01122 176 KFRR----FATNNNVHITLVIH----PRKEDDDNELtTSSIFGSAKATQEADNVLILQDKRLISGEGKKF---LQIKKNR 244
|
|
| ATPase |
pfam06745 |
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ... |
1-176 |
9.18e-03 |
|
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and eukaryotes. More than one copy is sometimes found in each protein. This family includes KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria.
Pssm-ID: 429095 [Multi-domain] Cd Length: 231 Bit Score: 36.45 E-value: 9.18e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 1 IKTGFKDLDSLTNGFHP-GNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEI--TMRMLSAEARvALnn 77
Cdd:pfam06745 1 VKTGIPGLDEILKGGFPeGRVVLITGGPGTGKTIFGLQFLYNGALKYGEPGVFVTLEEPPEDLreNARSFGWDLE-KL-- 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 78 IRSGSLSDDEwsklARRMGEINDAPLFIDDSPNLsMMEIRAKARRLKQRHdlklVVIDYLqlmtSGKKVENRQQEVSEFS 157
Cdd:pfam06745 78 EEEGKLAIID----ASTSGIGIAEVEDRFDLEEL-IERLREAIREIGAKR----VVIDSI----TTLFYLLKPAVAREIL 144
|
170
....*....|....*....
gi 143295099 158 RQLKLLAKELNVPVVAISQ 176
Cdd:pfam06745 145 RRLKRVLKGLGVTAIFTSE 163
|
|
|