|
Name |
Accession |
Description |
Interval |
E-value |
| PolY_Pol_IV_kappa |
cd03586 |
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ... |
24-370 |
1.22e-139 |
|
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Known primarily as Pol IV in prokaryotes and Pol kappa in eukaryotes, this polymerase has a propensity for generating frameshift mutations. The eukaryotic Pol kappa differs from Pol IV and Dpo4 by an N-terminal extension of ~75 residues known as the "N-clasp" region. The structure of Pol kappa shows DNA that is almost totally encircled by Pol kappa, with the N-clasp region augmenting the interactions between DNA and the polymerase. Pol kappa is more resistant than Pol eta and Pol iota to bulky guanine adducts and is efficient at catalyzing the incorporation of dCTP. Bacterial pol IV has a higher error rate than other Y-family polymerases.
Pssm-ID: 176459 [Multi-domain] Cd Length: 334 Bit Score: 402.28 E-value: 1.22e-139
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 24 LHIDMDAFYASLEIARHPELAGKPVIIGTGP-RSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMMSHR 102
Cdd:cd03586 1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSSdRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 103 IFsEVFSQITDRIEQVSVDECYMDVSGALLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPDGMLLI 182
Cdd:cd03586 81 IM-EILREYTPLVEPLSIDEAYLDVTDYVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVI 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 183 PKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSatVAHGLMLASHGIDEREVTPYTPEKS 262
Cdd:cd03586 160 PPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGK--SGRRLYELARGIDNRPVEPDRERKS 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 263 IGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFNDLSYRTKAHTMDRPTDTAGVLYPQSTALLKA 342
Cdd:cd03586 238 IGVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLEE 317
|
330 340
....*....|....*....|....*...
gi 705423170 343 MLglppdagedtpLPRQVRLAGVSASGL 370
Cdd:cd03586 318 LL-----------DGRPIRLLGVRLSGL 334
|
|
| DinP |
COG0389 |
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ... |
21-368 |
2.30e-131 |
|
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];
Pssm-ID: 440158 [Multi-domain] Cd Length: 336 Bit Score: 381.41 E-value: 2.30e-131
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 21 CTVLHIDMDAFYASLEIARHPELAGKPVIIG-TGPRSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMM 99
Cdd:COG0389 1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGgDNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRDV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 100 SHRIFsEVFSQITDRIEQVSVDECYMDVSGALLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPDGM 179
Cdd:COG0389 81 SRRVM-AILERYTPLVEPLSIDEAFLDVTGSARLFGSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGL 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 180 LLIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSatvaHGLML--ASHGIDEREVTPY 257
Cdd:COG0389 160 TVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGK----VGERLyrLARGIDPRPVEPR 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 258 TPEKSIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFNDLSYRTKAHTMDRPTDTAGVLYPQST 337
Cdd:COG0389 236 RPRKSIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDFRTTTRSRTLPEPTDDTAELLRAAR 315
|
330 340 350
....*....|....*....|....*....|.
gi 705423170 338 ALLKAMLglppdagedtPLPRQVRLAGVSAS 368
Cdd:COG0389 316 ELLERIY----------RPGRPVRLLGVRLS 336
|
|
| PRK02406 |
PRK02406 |
DNA polymerase IV; Validated |
28-376 |
3.22e-99 |
|
DNA polymerase IV; Validated
Pssm-ID: 235035 [Multi-domain] Cd Length: 343 Bit Score: 299.73 E-value: 3.22e-99
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 28 MDAFYASLEIARHPELAGKPVIIG--TGPRSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMMSHRIFs 105
Cdd:PRK02406 1 MDCFYAAVEMRDNPELRGKPVAVGgsPGRRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIR- 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 106 EVFSQITDRIEQVSVDECYMDVSGALLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPDGMLLIPKA 185
Cdd:PRK02406 80 EIFRRYTDLIEPLSLDEAYLDVTDNKLCIGSATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPE 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 186 RHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSAtvAHGLMLASHGIDEREVTPYTPEKSIGS 265
Cdd:PRK02406 160 EVDAFLATLPVEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFGKF--GRRLYERARGIDERPVKPDRERKSVGV 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 266 ERTFAADTTDMHTVNTLLRRCCDEVASTLRKRG--LMARTVTVKLRFNDLSYRTKAHTMDrPTDTAGVLYPQSTALLKAM 343
Cdd:PRK02406 238 ERTFAEDLYDLEACLAELPRLAEKLERRLERAKpdKRIKTVGVKLKFADFQQTTKEHTAD-PLDKADLIELLAQALLRRL 316
|
330 340 350
....*....|....*....|....*....|...
gi 705423170 344 LGlppdagedtplpRQVRLAGVSASGLAEREST 376
Cdd:PRK02406 317 GG------------RGVRLLGVGVTLLEPQLER 337
|
|
| IMS |
pfam00817 |
impB/mucB/samB family; These proteins are involved in UV protection (Swiss). |
26-171 |
1.48e-61 |
|
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
Pssm-ID: 425885 [Multi-domain] Cd Length: 148 Bit Score: 195.87 E-value: 1.48e-61
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 26 IDMDAFYASLEIARHPELAGKPVIIGTGP-RSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMMSHRIF 104
Cdd:pfam00817 1 IDMDAFFASVELLRDPELKGKPVAVGGGNgRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKIF 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 705423170 105 SEVFSQITDRIEQVSVDECYMDVSGALLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMAS 171
Cdd:pfam00817 81 EILRRFSTPKVEQASIDEAFLDLTGLEKLFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLAS 147
|
|
| TIGR03491 |
TIGR03491 |
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family ... |
187-237 |
2.68e-03 |
|
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.
Pssm-ID: 274603 [Multi-domain] Cd Length: 457 Bit Score: 40.00 E-value: 2.68e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|.
gi 705423170 187 HAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSAT 237
Cdd:TIGR03491 200 EAVAKEEGHLSLVPGIGPSRYRLLQELGIHTLEDLAAADPNDLEDFGEQGL 250
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PolY_Pol_IV_kappa |
cd03586 |
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ... |
24-370 |
1.22e-139 |
|
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Known primarily as Pol IV in prokaryotes and Pol kappa in eukaryotes, this polymerase has a propensity for generating frameshift mutations. The eukaryotic Pol kappa differs from Pol IV and Dpo4 by an N-terminal extension of ~75 residues known as the "N-clasp" region. The structure of Pol kappa shows DNA that is almost totally encircled by Pol kappa, with the N-clasp region augmenting the interactions between DNA and the polymerase. Pol kappa is more resistant than Pol eta and Pol iota to bulky guanine adducts and is efficient at catalyzing the incorporation of dCTP. Bacterial pol IV has a higher error rate than other Y-family polymerases.
Pssm-ID: 176459 [Multi-domain] Cd Length: 334 Bit Score: 402.28 E-value: 1.22e-139
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 24 LHIDMDAFYASLEIARHPELAGKPVIIGTGP-RSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMMSHR 102
Cdd:cd03586 1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSSdRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 103 IFsEVFSQITDRIEQVSVDECYMDVSGALLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPDGMLLI 182
Cdd:cd03586 81 IM-EILREYTPLVEPLSIDEAYLDVTDYVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVI 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 183 PKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSatVAHGLMLASHGIDEREVTPYTPEKS 262
Cdd:cd03586 160 PPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGK--SGRRLYELARGIDNRPVEPDRERKS 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 263 IGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFNDLSYRTKAHTMDRPTDTAGVLYPQSTALLKA 342
Cdd:cd03586 238 IGVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLEE 317
|
330 340
....*....|....*....|....*...
gi 705423170 343 MLglppdagedtpLPRQVRLAGVSASGL 370
Cdd:cd03586 318 LL-----------DGRPIRLLGVRLSGL 334
|
|
| DinP |
COG0389 |
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ... |
21-368 |
2.30e-131 |
|
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];
Pssm-ID: 440158 [Multi-domain] Cd Length: 336 Bit Score: 381.41 E-value: 2.30e-131
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 21 CTVLHIDMDAFYASLEIARHPELAGKPVIIG-TGPRSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMM 99
Cdd:COG0389 1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGgDNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRDV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 100 SHRIFsEVFSQITDRIEQVSVDECYMDVSGALLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPDGM 179
Cdd:COG0389 81 SRRVM-AILERYTPLVEPLSIDEAFLDVTGSARLFGSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGL 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 180 LLIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSatvaHGLML--ASHGIDEREVTPY 257
Cdd:COG0389 160 TVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGK----VGERLyrLARGIDPRPVEPR 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 258 TPEKSIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFNDLSYRTKAHTMDRPTDTAGVLYPQST 337
Cdd:COG0389 236 RPRKSIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDFRTTTRSRTLPEPTDDTAELLRAAR 315
|
330 340 350
....*....|....*....|....*....|.
gi 705423170 338 ALLKAMLglppdagedtPLPRQVRLAGVSAS 368
Cdd:COG0389 316 ELLERIY----------RPGRPVRLLGVRLS 336
|
|
| PRK02406 |
PRK02406 |
DNA polymerase IV; Validated |
28-376 |
3.22e-99 |
|
DNA polymerase IV; Validated
Pssm-ID: 235035 [Multi-domain] Cd Length: 343 Bit Score: 299.73 E-value: 3.22e-99
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 28 MDAFYASLEIARHPELAGKPVIIG--TGPRSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMMSHRIFs 105
Cdd:PRK02406 1 MDCFYAAVEMRDNPELRGKPVAVGgsPGRRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIR- 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 106 EVFSQITDRIEQVSVDECYMDVSGALLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPDGMLLIPKA 185
Cdd:PRK02406 80 EIFRRYTDLIEPLSLDEAYLDVTDNKLCIGSATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPE 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 186 RHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSAtvAHGLMLASHGIDEREVTPYTPEKSIGS 265
Cdd:PRK02406 160 EVDAFLATLPVEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFGKF--GRRLYERARGIDERPVKPDRERKSVGV 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 266 ERTFAADTTDMHTVNTLLRRCCDEVASTLRKRG--LMARTVTVKLRFNDLSYRTKAHTMDrPTDTAGVLYPQSTALLKAM 343
Cdd:PRK02406 238 ERTFAEDLYDLEACLAELPRLAEKLERRLERAKpdKRIKTVGVKLKFADFQQTTKEHTAD-PLDKADLIELLAQALLRRL 316
|
330 340 350
....*....|....*....|....*....|...
gi 705423170 344 LGlppdagedtplpRQVRLAGVSASGLAEREST 376
Cdd:PRK02406 317 GG------------RGVRLLGVGVTLLEPQLER 337
|
|
| PRK03348 |
PRK03348 |
DNA polymerase IV; Provisional |
22-372 |
1.65e-92 |
|
DNA polymerase IV; Provisional
Pssm-ID: 235118 [Multi-domain] Cd Length: 454 Bit Score: 286.45 E-value: 1.65e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 22 TVLHIDMDAFYASLEIARHPELAGKPVIIG-TGPRSVVSAASYEARRYGINSAMASARARQLCP-DGVFLPVDMRYYRMM 99
Cdd:PRK03348 6 WVLHLDMDAFFASVEQLTRPTLRGRPVLVGgLGGRGVVAGASYEARVFGARSAMPMHQARRLVGnGAVVLPPRFVVYRAA 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 100 SHRIFsEVFSQITDRIEQVSVDECYMDVSGalLRWGSPSAIGAWV---RRQVAARYHVTCSVGIAANKLVAKMASTNAKP 176
Cdd:PRK03348 86 SRRVF-DTLRELSPVVEQLSFDEAFVEPAE--LAGASAEEVEAFAerlRARVREETGLPASVGAGSGKQIAKIASGLAKP 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 177 DGMLLIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGsATVAHGLMLASHGIDEREVTP 256
Cdd:PRK03348 163 DGIRVVPPGEERELLAPLPVRRLWGIGPVTEEKLHRLGIETIGDLAALSEAEVANLLG-ATVGPALHRLARGIDDRPVAE 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 257 YTPEKSIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFNDLSYRTKAHTMDRPTDTAGVLYPQS 336
Cdd:PRK03348 242 RAEAKQISAESTFAVDLTTRAQLREAIERIAEHAHRRLLKDGRGARTVTVKLRKSDFSTLTRSATLPYATDDAAVLAATA 321
|
330 340 350
....*....|....*....|....*....|....*.
gi 705423170 337 TALLkamlglpPDAGEDTPlprqVRLAGVSASGLAE 372
Cdd:PRK03348 322 RRLL-------LDPDEIGP----IRLVGVGFSGLSD 346
|
|
| PRK02794 |
PRK02794 |
DNA polymerase IV; Provisional |
22-419 |
2.62e-89 |
|
DNA polymerase IV; Provisional
Pssm-ID: 179473 [Multi-domain] Cd Length: 419 Bit Score: 276.81 E-value: 2.62e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 22 TVLHIDMDAFYASLEIARHPELAGKPVIIGTGPRSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMMSH 101
Cdd:PRK02794 37 SIAHIDCDAFYASVEKRDNPELRDKPVIIGGGKRGVVSTACYIARIHGVRSAMPMFKALKLCPDAVVIKPDMEKYVRVGR 116
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 102 RIFsEVFSQITDRIEQVSVDECYMDVSG-ALLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPDGML 180
Cdd:PRK02794 117 EVR-AMMQALTPLVEPLSIDEAFLDLSGtERLHGAPPAVVLARFARRVEREIGITVSVGLSYNKFLAKIASDLDKPRGFS 195
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 181 LIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSatvaHGLMLA--SHGIDEREVTPYT 258
Cdd:PRK02794 196 VIGRAEALAFLAPKPVGIIWGVGPATAARLARDGIRTIGDLQRADEADLMRRFGS----MGLRLWrlARGIDDRKVSPDR 271
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 259 PEKSIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFNDLSYRTKAHTMDRPTDTAGVLYPQSTA 338
Cdd:PRK02794 272 EAKSVSAETTFETDLSDFEDLEPILWRLSEKVSRRLKAAGLAGRTVTLKLKTADFRLRTRRRTLEDPTQLADRIFRTARE 351
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 339 LLKAMLGlppdagedtplPRQVRLAGVSASGLAErestPVQMSIDDLLEQDtassgqtrSARLRDAEQALDAIRQRYGKG 418
Cdd:PRK02794 352 LLEKETD-----------GTAFRLIGIGVSDLSP----ADEADPPDLLDPQ--------ATRRAAAERAIDALRAKFGAA 408
|
.
gi 705423170 419 A 419
Cdd:PRK02794 409 A 409
|
|
| PRK03858 |
PRK03858 |
DNA polymerase IV; Validated |
18-419 |
5.96e-85 |
|
DNA polymerase IV; Validated
Pssm-ID: 179663 [Multi-domain] Cd Length: 396 Bit Score: 264.93 E-value: 5.96e-85
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 18 ETGCTVLHIDMDAFYASLEIARHPELAGKPVIIGTGprsVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYR 97
Cdd:PRK03858 1 RADASILHADLDSFYASVEQRDDPALRGRPVIVGGG---VVLAASYEAKAYGVRTAMGGRQARRLCPQAVVVPPRMSAYS 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 98 MMSHRIFsEVFSQITDRIEQVSVDECYMDVSGALLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPD 177
Cdd:PRK03858 78 RASKAVF-EVFRDTTPLVEGLSIDEAFLDVGGLRRISGTPVQIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAKPD 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 178 GMLLIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSATVAHgLMLASHGIDEREVTPY 257
Cdd:PRK03858 157 GLLVVPPDRELAFLHPLPVRRLWGVGPVTAAKLRAHGITTVGDVAELPESALVSLLGPAAGRH-LHALAHNRDPRRVETG 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 258 TPEKSIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFNDLSYRTKAHTMDRPTDTAGVLYPQST 337
Cdd:PRK03858 236 RRRRSVGAQRALGRGPNSPAEVDAVVVALVDRVARRMRAAGRTGRTVVLRLRFDDFTRATRSHTLPRPTASTATLLAAAR 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 338 ALLKAMLGLPPDagedtplpRQVRLAGVSASGLaeRESTPVQMSIDDLLEQDTASsgqtrsarlrdAEQALDAIRQRYGK 417
Cdd:PRK03858 316 DLVAAAAPLIAE--------RGLTLVGFAVSNL--DDDGAQQLELPFGLRRPGSA-----------LDAALDAVRDRFGN 374
|
..
gi 705423170 418 GA 419
Cdd:PRK03858 375 AA 376
|
|
| PRK14133 |
PRK14133 |
DNA polymerase IV; Provisional |
23-383 |
5.26e-78 |
|
DNA polymerase IV; Provisional
Pssm-ID: 184529 [Multi-domain] Cd Length: 347 Bit Score: 245.40 E-value: 5.26e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 23 VLHIDMDAFYASLEIARHPELAGKPVIIG-TGPRSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMMSH 101
Cdd:PRK14133 5 IIHVDMDAFFASVEQMDNPKLKGKPVIVGgISERGVVSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVRHERYKEVSK 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 102 RIFsEVFSQITDRIEQVSVDECYMDVSGALlrwGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPDGMLL 181
Cdd:PRK14133 85 NIF-KILYEVTPIVEPVSIDEAYLDITNIK---EEPIKIAKYIKKKVKKETGLTLSVGISYNKFLAKLASDWNKPDGIKI 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 182 IPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSATVAhgLMLASHGIDEREVTPYTPEK 261
Cdd:PRK14133 161 ITEDMIPDILKPLPISKVHGIGKKSVEKLNNIGIYTIEDLLKLSREFLIEYFGKFGVE--IYERIRGIDYREVEVSRERK 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 262 SIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFNDLSYRTKAHTMDRPTDTAGVLYPQSTALLk 341
Cdd:PRK14133 239 SIGKETTLKKDTKDKEELKKYLKDFSNIISEELKKRNLYGKTVTVKIKTSDFQTHTKSKTLNDYIRDKEEIYNVACEIL- 317
|
330 340 350 360
....*....|....*....|....*....|....*....|..
gi 705423170 342 amlglppdagEDTPLPRQVRLAGVSASGLAERESTpvQMSID 383
Cdd:PRK14133 318 ----------EHINIKEPIRLIGLSVSNLSENKIE--QLSFL 347
|
|
| PRK03103 |
PRK03103 |
DNA polymerase IV; Reviewed |
21-419 |
1.12e-77 |
|
DNA polymerase IV; Reviewed
Pssm-ID: 235104 [Multi-domain] Cd Length: 409 Bit Score: 246.45 E-value: 1.12e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 21 CTVLHIDMDAFYASLEIARHPELAGKPVIIGTGP--RS-VVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYR 97
Cdd:PRK03103 3 RVILLVDMQSFYASVEKAANPELKGRPVIVSGDPerRSgVVLAACPLAKAYGVKTAERLWEAQQKCPDLVVVKPRMQRYI 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 98 MMSHRIfSEVFSQITDRIEQVSVDECYMDVSGALLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNA--- 174
Cdd:PRK03103 83 DVSLQI-TRILEDFTDLVEPFSIDEQFLDVTGSQKLFGSPLEIAQKIQQRIMRETGVYARVGIGPNKLLAKMACDNFakk 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 175 KPDGMLLIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGsaTVAHGLMLASHGIDEREV 254
Cdd:PRK03103 162 NPDGLFTLDKEDVPADLWPLPVRKLFGVGSRMEKHLRRMGIRTIGQLANTPLERLKKRWG--INGEVLWRTANGIDYSPV 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 255 TPYTPE--KSIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFNDLSYRTKAH---TMDRPTDTA 329
Cdd:PRK03103 240 TPHSLDrqKAIGHQMTLPRDYRGFEEIKVVLLELCEEVCRRARAKGYMGRTVSVSLRGADFDWPTGFSrqmTLPEPTNLA 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 330 GVLYPQSTALLKAML-GLPpdagedtplprqVRLAGVSASGLAEREstPVQMSIDDlleqdtassgqtRSARLRDAEQAL 408
Cdd:PRK03103 320 MEVYEAACKLFHRHWdGKP------------VRRVGVTLSNLVSDD--VWQLSLFG------------DRERKRSLGYVM 373
|
410
....*....|.
gi 705423170 409 DAIRQRYGKGA 419
Cdd:PRK03103 374 DDIKNRFGPTA 384
|
|
| PRK01810 |
PRK01810 |
DNA polymerase IV; Validated |
23-419 |
7.13e-73 |
|
DNA polymerase IV; Validated
Pssm-ID: 179337 [Multi-domain] Cd Length: 407 Bit Score: 234.15 E-value: 7.13e-73
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 23 VLHIDMDAFYASLEIARHPELAGKPVIIGTGP---RSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMM 99
Cdd:PRK01810 7 IFHVDMNSFFASVEIAYDPSLQGKPLAVAGNEkerKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRRPNFDRYREA 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 100 SHRIFSeVFSQITDRIEQVSVDECYMDVSGALLRwGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPDGM 179
Cdd:PRK01810 87 SRQMFQ-ILSEFTPLVQPVSIDEGYLDITDCYAL-GSPLEIAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKPLGI 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 180 LLIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGsatvAHGLMLA--SHGIDEREVTPY 257
Cdd:PRK01810 165 TVLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLG----INGVRLQrrANGIDDRPVDPE 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 258 TPE--KSIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFNDLSYRTKAHTMDRPTDTAGVLYPQ 335
Cdd:PRK01810 241 AIYqfKSVGNSTTLSHDMDEEKELLDVLRRLSKSVSKRLQKKTVVSYNVQIMIRYHDRRTITRSKTLKNPIWEKRDIFQA 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 336 STALLKamlglppDAGEDTPlprqVRLAGVSASGLAERESTPVQMsidDLL--EQDtassgqtrsARLRDAEQALDAIRQ 413
Cdd:PRK01810 321 ASRLFK-------QHWNGDP----VRLLGVTATDLEWKTEAVKQL---DLFsfEED---------AKEEPLLAVIDQIND 377
|
....*.
gi 705423170 414 RYGKGA 419
Cdd:PRK01810 378 KYGMPL 383
|
|
| PolY |
cd00424 |
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ... |
24-366 |
9.71e-65 |
|
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Most TLS polymerases are members of the Y-family, including Pol eta, Pol kappa/IV, Pol iota, Rev1, and Pol V, which is found exclusively in bacteria. In eukaryotes, the B-family polymerase Pol zeta also functions as a TLS polymerase. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in order to access the lesion. Because of their high error rates, TLS polymerases are potential targets for cancer treatment and prevention.
Pssm-ID: 176453 [Multi-domain] Cd Length: 343 Bit Score: 211.07 E-value: 9.71e-65
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 24 LHIDMDAFYASLEIARHPELAGKPVII--GTGPRSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMMSH 101
Cdd:cd00424 1 LHIDFDNFFASVEQLARPELKGRPVVVvpFNSDSTCVIACSYEARKYGVKRGMPVREARKMCPNLILVPARLDLYRRLSE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 102 RIFSEvFSQITDRIEQVSVDECYMDVSGALLRWGSPSAIGAWVRRQVAARY-HVTCSVGIAANKLVAKMASTNAKPDGML 180
Cdd:cd00424 81 RLLSE-LEEVAPLVEVASIDELFLDLTGSARLLGLGSEVALRIKRHIAEQLgGITASIGIASNKLLAKLAAKYAKPDGLT 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 181 LIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADL-AATPEATLAQATGSatVAHGLMLASHGIDEREVTPYTP 259
Cdd:cd00424 160 ILDPEDLPGFLSKLPLTDLPGIGAVTAKRLEAVGINPIGDLlAASPDALLALWGGV--SGERLWYALRGIDDEPLSPPRP 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 260 EKSIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFNDLSYRTKAhtmDRPTDTAGVLYP-QSTA 338
Cdd:cd00424 238 RKSFSHERVLPRDSRNAEDARPLLRLLLEKLARRLRRDGRGATRLRLWLRTVDGRWSGHA---DIPSRSAPRPIStEDGE 314
|
330 340
....*....|....*....|....*...
gi 705423170 339 LLKAMLGLPPDAGEDTPlPRQVRLAGVS 366
Cdd:cd00424 315 LLHALDKLWRALLDDKG-PRRLRRLGVR 341
|
|
| PRK03352 |
PRK03352 |
DNA polymerase IV; Validated |
23-367 |
8.11e-64 |
|
DNA polymerase IV; Validated
Pssm-ID: 179564 [Multi-domain] Cd Length: 346 Bit Score: 208.72 E-value: 8.11e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 23 VLHIDMDAFYASLEIARHPELAGKPVIIG-----TGPRSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYR 97
Cdd:PRK03352 7 VLHVDLDQFIAAVELLRRPELAGLPVIVGgngdpTEPRKVVTCASYEARAFGVRAGMPLRTAARRCPDAVFLPSDPAAYD 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 98 MMSHRIFSEVFSQiTDRIEQVSVDECYMDVsgallRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPD 177
Cdd:PRK03352 87 AASEEVMATLRDL-GVPVEVWGWDEAFLGV-----DTDDPEALAEEIRAAVLERTGLSCSVGIGDNKLRAKIATGFAKPA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 178 GMLLIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSATVAHGLMLAsHGIDEREV--T 255
Cdd:PRK03352 161 GVFRLTDANWMAVMGDRPTDALWGVGPKTAKRLAALGITTVADLAAADPAELAATFGPTTGPWLLLLA-RGGGDTEVsaE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 256 PYTPeKSIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFNDLSYRTKAHTMDRPTDTAGVLYPQ 335
Cdd:PRK03352 240 PWVP-RSRSREVTFPQDLTDRAEVESAVRELARRVLDEVVAEGRPVTRVAVKVRTATFYTRTKIRKLPEPTTDPDVIEAA 318
|
330 340 350
....*....|....*....|....*....|..
gi 705423170 336 STALLKAMlglppdagedtPLPRQVRLAGVSA 367
Cdd:PRK03352 319 ALDVLDRF-----------ELDRPVRLLGVRL 339
|
|
| IMS |
pfam00817 |
impB/mucB/samB family; These proteins are involved in UV protection (Swiss). |
26-171 |
1.48e-61 |
|
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
Pssm-ID: 425885 [Multi-domain] Cd Length: 148 Bit Score: 195.87 E-value: 1.48e-61
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 26 IDMDAFYASLEIARHPELAGKPVIIGTGP-RSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMMSHRIF 104
Cdd:pfam00817 1 IDMDAFFASVELLRDPELKGKPVAVGGGNgRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKIF 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 705423170 105 SEVFSQITDRIEQVSVDECYMDVSGALLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMAS 171
Cdd:pfam00817 81 EILRRFSTPKVEQASIDEAFLDLTGLEKLFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLAS 147
|
|
| PolY_Rev1 |
cd01701 |
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ... |
22-308 |
3.34e-60 |
|
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Rev1 has both structural and enzymatic roles. Structurally, it is believed to interact with other nonclassical polymerases and replication machinery to act as a scaffold. Enzymatically, it catalyzes the specific insertion of dCMP opposite abasic sites. Rev1 interacts with the Rev7 subunit of the B-family TLS polymerase Pol zeta (Rev3/Rev7). Rev1 is known to actively promote the introduction of mutations, potentially making it a significant target for cancer treatment.
Pssm-ID: 176455 [Multi-domain] Cd Length: 404 Bit Score: 201.00 E-value: 3.34e-60
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 22 TVLHIDMDAFYASLEIARHPELAGKPVII--GTGPRSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMM 99
Cdd:cd01701 48 IIMHVDFDCFFVSVSIRNRPDLKGKPVAVchGKGPNSEIASCNYEARSYGIKNGMWVGQAKKLCPQLVTLPYDFEAYEEV 127
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 100 SHRIFSEVFSqITDRIEQVSVDECYMDVSGALLR-WGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPDG 178
Cdd:cd01701 128 SLTFYEILAS-YTDNIEAVSCDEALIDITSLLEEtYELPEELAEAIRNEIRETTGCSASVGIGPNILLARLATRKAKPDG 206
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 179 MLLIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAAT--PEATLAQATGSATvahGLMLA--SHGIDEREV 254
Cdd:cd01701 207 QYHLSAEKVEEFLSQLKVGDLPGVGSSLAEKLVKLFGDTCGGLELRskTKEKLQKVLGPKT---GEKLYdyCRGIDDRPV 283
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|....
gi 705423170 255 TPYTPEKSIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKL 308
Cdd:cd01701 284 TGEKERKSVSAEINYGIRFTNVDDVEQFLQRLSEELSKRLEESNVTGRQITLKL 337
|
|
| PolY_Pol_V_umuC |
cd01700 |
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ... |
24-369 |
3.45e-56 |
|
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion synthesis (TLS) polymerase that consists of the heterotrimer of one umuC and two umuD subunits. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol V, RecA, single stranded DNA-binding protein, beta sliding clamp, and gamma clamp loading complex are responsible for inducing the SOS response in bacteria to repair UV-induced DNA damage.
Pssm-ID: 176454 [Multi-domain] Cd Length: 344 Bit Score: 188.53 E-value: 3.45e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 24 LHIDMDAFYASLEIARHPELAGKPVII-GTGPRSVVsAASYEARRYGINSAMASARARQLCPD--GVFLPVDMRYYRMMS 100
Cdd:cd01700 1 ALVDCNSFYASCERVFRPLLLGRPLVVlSNNDGCVI-ARSPEAKALGIKMGSPYFKVPDLLERhgVAVFSSNYALYGDMS 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 101 HRIfSEVFSQITDRIEQVSVDECYMDVSGaLLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAK----- 175
Cdd:cd01700 80 RRI-MSILERFSPDVEVYSIDESFLDLTG-SLRFGDLEELARKIRRRILQETGIPVTVGIGPTKTLAKLANDLAKkknpy 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 176 PDGMLLIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQA---TGSATVAHglmlaSHGIDER 252
Cdd:cd01700 158 GGVVDLTDEEVRDKLLKILPVGDVWGIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKfgvVGERLVRE-----LNGIDCL 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 253 EVTPYTP-EKSIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFN----DLSYRTKAHTMDRPTD 327
Cdd:cd01700 233 PLEEYPPpKKSIGSSRSFGRDVTDLDELKQALAEYAERAAEKLRRQKSVARTISVFIGTSgfsrQPKYYSATNTLPYPTN 312
|
330 340 350 360
....*....|....*....|....*....|....*....|....
gi 705423170 328 TAGVLYPQSTALLKAML--GLPpdagedtplprqVRLAGVSASG 369
Cdd:cd01700 313 DTREIVKAALRLLYAIYrpGYA------------YRKAGVMLSD 344
|
|
| PRK01216 |
PRK01216 |
DNA polymerase IV; Validated |
23-372 |
3.31e-41 |
|
DNA polymerase IV; Validated
Pssm-ID: 179251 [Multi-domain] Cd Length: 351 Bit Score: 149.55 E-value: 3.31e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 23 VLHIDMDAFYASLEIARHPELAGKPVII----GTGPRS-VVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYR 97
Cdd:PRK01216 3 ILFVDFDYFFAQVEEVLNPSLKGKPVVVcvysGRFEDSgAVATANYEARKLGIKAGMPIVEAKKILPNAVYLPMRKEVYQ 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 98 MMSHRIFSeVFSQITDRIEQVSVDECYMDVSGALLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPD 177
Cdd:PRK01216 83 QVSNRIMK-LLREYSEKIEIASIDEAYLDISDKVKNYQDAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPN 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 178 GMLLIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSATVAHGLMLASHGIDErevtPY 257
Cdd:PRK01216 162 GIKVIDDEEVKRFINELDIADIPGIGDITAEKLKKLGVNKLVDTLRIEFDELKGIIGEAKAKYLFSLARNEYNE----PV 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 258 TPE--KSIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGlMARTVTVKLRFNDLSYRTKAHTMDRPTDTAgvlYPQ 335
Cdd:PRK01216 238 RARvrKSIGRYVTLPRNTRDLEEIKPYLKRAIEEAYYKLDGIP-KAIHVVAIMEDLDIVSRGRTFTHGISKETA---YRE 313
|
330 340 350
....*....|....*....|....*....|....*..
gi 705423170 336 STALLKAMLglppdaGEDTplpRQVRLAGVSASGLAE 372
Cdd:PRK01216 314 AVRLLQKIL------EEDE---RKIRRIGVRFSKIIE 341
|
|
| PolY_Pol_iota |
cd01703 |
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ... |
24-356 |
2.30e-39 |
|
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Pol iota is thought to be one of the least efficient polymerases, particularly when opposite pyrimidines; it can incorporate the correct nucleotide opposite a purine much more efficiently than opposite a pyrimidine, and prefers to insert guanosine instead of adenosine opposite thymidine. Pol iota is believed to use Hoogsteen rather than Watson-Crick base pairing, which may explain the varying efficiency for different template nucleotides.
Pssm-ID: 176457 [Multi-domain] Cd Length: 379 Bit Score: 145.31 E-value: 2.30e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 24 LHIDMDAFYASLEIARHPELAGKPviIGTGPRSVVSAASYEARRYGINSAMASARARQLCPDGVF-LPVDMRYYRMMSHR 102
Cdd:cd01703 1 IHLDLDCFYAQVEEIRDPSLKSKP--LGIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLvNGEDLTPFRDMSKK 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 103 IFsEVFSQIT--DRIEQVSVDECYMDVSGalLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKPDG-- 178
Cdd:cd01703 79 VY-RLLRSYSwnDRVERLGFDENFMDVTE--MRLLVASHIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQqt 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 179 MLLIPKARHA-EFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPeATLAQATGSATVAHGLMLAS----------- 246
Cdd:cd01703 156 TLLPPSCADLmDFMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEFS-NRNRQTVGAAPSLLELLLMVkefgegigqri 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 247 ----HGIDEREV-TPYTPEKSIGSERTF--------AADTTDMHTVN-TLLRRCCDEVASTLRKRGLMARTVTVKLRfnd 312
Cdd:cd01703 235 wkllFGRDTSPVkPASDFPQQISIEDSYkkcsleeiREARNKIEELLaSLLERMKQDLQEVKAGDGRRPHTLRLTLR--- 311
|
330 340 350 360
....*....|....*....|....*....|....*....|....
gi 705423170 313 lSYRTKAHTMDRPTDTAGVlyPQSTALlkamLGLPPDAGEDTPL 356
Cdd:cd01703 312 -RYTSTKKHYNRESKQAPI--PSHVFQ----KLTGGNEIAARPI 348
|
|
| PolY_Pol_eta |
cd01702 |
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ... |
25-356 |
2.61e-39 |
|
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. Translesion synthesis is a process that allows the bypass of a variety of DNA lesions. TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. Unlike other Y-family members, Pol eta can efficiently and accurately replicate DNA past UV-induced lesions. Its activity is initiated by two simultaneous interactions: the PIP box in pol eta interacting with PCNA, and the UBZ (ubiquitin-binding zinc finger) in pol eta interacting with monoubiquitin attached to PCNA. Pol eta is more efficient in copying damaged DNA than undamaged DNA and seems to recognize when a lesion has been passed, facilitating a lesion-dependent dissociation from the DNA.
Pssm-ID: 176456 [Multi-domain] Cd Length: 359 Bit Score: 144.38 E-value: 2.61e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 25 HIDMDAFYASLEIARHPELAGKPViigtgprsVVS------AASYEARRYGINSAMASARARQLCPD------GVF---- 88
Cdd:cd01702 2 HIDMDAFFAQVEQVRLGLLRNDPV--------AVVqwnsiiAVSYAARAFGVTRFMTIDEAKKKCPDlilahvATYkkge 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 89 -------LPVDMRY------YRMMSHRIFsEVFSQITDRIEQVSVDECYMDVSgallrwgspSAIGAWVRRQVAARYHVT 155
Cdd:cd01702 74 deadyheNPSPARHkvsldpYRRASRKIL-NILKRFGDVVEKASIDEAYLDLG---------SRIVEEIRQQVYDELGYT 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 156 CSVGIAANKLVAKMASTNAKPDGMLLIPKARHAEFVQIMPLRGIPGIGPSL-ERRLNAWGIDSVADLAATP--EATLAQA 232
Cdd:cd01702 144 CSAGIAHNKMLAKLASGMNKPNAQTILRNDAVASFLSSLPITSIRGLGGKLgEEIIDLLGLPTEGDVAGFRssESDLQEH 223
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 233 TGsATVAHGLMLASHGIDEREVTPYTPEKSIGSERTFA-ADTTDMHTVNTLLRRCCDEVASTLRK----RGLMARTVTVK 307
Cdd:cd01702 224 FG-EKLGEWLYNLLRGIDHEPVKPRPLPKSMGSSKNFPgKTALSTEDVQHWLLVLASELNSRLEDdryeNNRRPKTLVLS 302
|
330 340 350 360
....*....|....*....|....*....|....*....|....*....
gi 705423170 308 LRfNDLSYRTKAHTMDRPTDTAGVLYPQSTALLKAMLGLPPDAGEDTPL 356
Cdd:cd01702 303 LR-QRGDGVRRSRSCALPRYDAQKIVKDAFKLIKAINEEGLGLAWNYPL 350
|
|
| PTZ00205 |
PTZ00205 |
DNA polymerase kappa; Provisional |
22-323 |
3.05e-30 |
|
DNA polymerase kappa; Provisional
Pssm-ID: 140232 [Multi-domain] Cd Length: 571 Bit Score: 122.82 E-value: 3.05e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 22 TVLHIDMDAFYASLEIARHPELAGKPVIIGTgpRSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMMSH 101
Cdd:PTZ00205 134 TYIHLDMDMFYAAVEIKKHPEYAAIPLAIGT--MTMLQTANYVARGRGIRQGMPGFLALKICPNLLILPPDFDAYNEESN 211
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 102 ---RIFSEVFSQITdrieQVSVDECYMDVSGALLRW-GSPSA--IGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAK 175
Cdd:PTZ00205 212 tvrRIVAEYDPNYI----SFGLDELTLEVSAYIERFeGTKTAedVASELRVRVFGETKLTASAGIGPTAALAKIASNINK 287
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 176 PDG---MLLIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVAD--------------------LAAT------PE 226
Cdd:PTZ00205 288 PNGqhdLNLHTRGDVMTYVRDLGLRSVPGVGKVTEALLKGLGITTLSDiynrrvelcyilhnnlfrflLGASigimqwPD 367
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 227 ATLAQATGSATVAHGLMlashgiderevtpytpEKSIGSERTFAA--DTTDMH-TVNTLLRRCCDEvastLRKRGLMART 303
Cdd:PTZ00205 368 AATAANTENCEGATGGQ----------------RKAISSERSFTTprTKEGLQeMVDTVFNGAYEE----MRKSELMCRQ 427
|
330 340
....*....|....*....|
gi 705423170 304 VTVKLRFNdlSYRTKAHTMD 323
Cdd:PTZ00205 428 ISLTIRWA--SYRYQQYTKS 445
|
|
| IMS_C |
pfam11799 |
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss). |
261-374 |
3.67e-27 |
|
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
Pssm-ID: 463354 [Multi-domain] Cd Length: 104 Bit Score: 104.18 E-value: 3.67e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 261 KSIGSERTFAADTTDMHTVNTLLRRCCDEVASTLRKRGLMARTVTVKLRFNDLSYRTKAHTMDRPTDTAGVLYPQSTALL 340
Cdd:pfam11799 2 KSIGAERTFGRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKIRYSDFRTITRSVTLPSPTDDTDEIYRAALRLL 81
|
90 100 110
....*....|....*....|....*....|....
gi 705423170 341 KAMLGlppdagedtplPRQVRLAGVSASGLAERE 374
Cdd:pfam11799 82 RRLYR-----------GRPVRLLGVSLSNLVPEG 104
|
|
| umuC |
PRK03609 |
translesion error-prone DNA polymerase V subunit UmuC; |
25-224 |
4.01e-19 |
|
translesion error-prone DNA polymerase V subunit UmuC;
Pssm-ID: 179607 [Multi-domain] Cd Length: 422 Bit Score: 88.67 E-value: 4.01e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 25 HIDMDAFYASLEIARHPELAGKPVIIGTGPRSVVSAASYEARRYGINSAMASARARQL-CPDGVF-LPVDMRYYRMMSHR 102
Cdd:PRK03609 4 LCDVNSFYASCETVFRPDLRGKPVVVLSNNDGCVIARSAEAKALGIKMGDPWFKQKDLfRRCGVVcFSSNYELYADMSNR 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 103 IFSeVFSQITDRIEQVSVDECYMDVSGaLLRWGSPSAIGAWVRRQVAARYHVTCSVGIAANKLVAKMASTNAKP-----D 177
Cdd:PRK03609 84 VMS-TLEELSPRVEIYSIDEAFCDLTG-VRNCRDLTDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKwqrqtG 161
|
170 180 190 200
....*....|....*....|....*....|....*....|....*...
gi 705423170 178 GML-LIPKARHAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAAT 224
Cdd:PRK03609 162 GVVdLSNLERQRKLLSLQPVEEVWGVGRRISKKLNAMGIKTALDLADT 209
|
|
| PolY_like |
cd03468 |
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ... |
39-309 |
1.40e-16 |
|
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that facilitate translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions. Unlike replicative polymerases, TLS polymerases lack proofreading activity and have low fidelity and low processivity. They use damaged DNA as templates and insert nucleotides opposite the lesions. The active sites of TLS polymerases are large and flexible to allow the accomodation of distorted bases. Expression of Y-family polymerases is often induced by DNA damage and is believed to be highly regulated. TLS is likely induced by the monoubiquitination of the replication clamp PCNA, which provides a scaffold for TLS polymerases to bind in order to access the lesion. Because of their high error rates, TLS polymerases are potential targets for cancer treatment and prevention.
Pssm-ID: 176458 [Multi-domain] Cd Length: 335 Bit Score: 80.12 E-value: 1.40e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 39 RHPELAGKP-VIIGTGPRSVVSAASYEARRYGINSAMASARARQLCPDGVFLPVDMRYYRMMSHRIFSEVFsQITDRIEQ 117
Cdd:cd03468 16 NRPADDEAPlAVVERKKAGRILACNAAARAAGVRPGMPLAEALALCPNLQVVEYDPEADARALQELALWLL-RFTPLVAL 94
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 118 VSVDECYMDVSGALLRWGSPsaIGAWVR-RQVAARYHVTCSVGIAANKLVAKMASTNAKPDGMLLIPKARHAEFVQIMPL 196
Cdd:cd03468 95 DGPDGLLLDVTGCLHLFGGE--DALAASlRAALATLGLSARAGIADTPGAAWLLARAGGGRGVLRREALAAALVLLAPLP 172
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 705423170 197 RGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSATVAHGLMLASHGIDEREVTPYTPEKSIGSERTFAADTTDm 276
Cdd:cd03468 173 VAALRLPPETVELLARLGLRTLGDLAALPRAELARRFGLALLLRLDQAYGRDPEPLLFSPPPPAFDFRLELQLEEPIAR- 251
|
250 260 270
....*....|....*....|....*....|...
gi 705423170 277 hTVNTLLRRCCDEVASTLRKRGLMARTVTVKLR 309
Cdd:cd03468 252 -GLLFPLRRLLEQLCAFLALRGLGARRLSLTLF 283
|
|
| HHH_5 |
pfam14520 |
Helix-hairpin-helix domain; |
196-234 |
1.20e-05 |
|
Helix-hairpin-helix domain;
Pssm-ID: 434010 [Multi-domain] Cd Length: 57 Bit Score: 42.48 E-value: 1.20e-05
10 20 30
....*....|....*....|....*....|....*....
gi 705423170 196 LRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATG 234
Cdd:pfam14520 4 LLSISGIGPKTALALLSAGIGTVEDLAEADVDELAEIPG 42
|
|
| IMS_HHH |
pfam11798 |
IMS family HHH motif; These proteins are involved in UV protection, eg. |
184-215 |
2.04e-04 |
|
IMS family HHH motif; These proteins are involved in UV protection, eg.
Pssm-ID: 432081 [Multi-domain] Cd Length: 32 Bit Score: 38.15 E-value: 2.04e-04
10 20 30
....*....|....*....|....*....|..
gi 705423170 184 KARHAEFVQIMPLRGIPGIGPSLERRLNAWGI 215
Cdd:pfam11798 1 PDDVPEFLWPLPISKIPGIGKKLAEKLKALGI 32
|
|
| TIGR03491 |
TIGR03491 |
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family ... |
187-237 |
2.68e-03 |
|
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.
Pssm-ID: 274603 [Multi-domain] Cd Length: 457 Bit Score: 40.00 E-value: 2.68e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|.
gi 705423170 187 HAEFVQIMPLRGIPGIGPSLERRLNAWGIDSVADLAATPEATLAQATGSAT 237
Cdd:TIGR03491 200 EAVAKEEGHLSLVPGIGPSRYRLLQELGIHTLEDLAAADPNDLEDFGEQGL 250
|
|
| |
