|
Name |
Accession |
Description |
Interval |
E-value |
| PRK01810 |
PRK01810 |
DNA polymerase IV; Validated |
1-276 |
0e+00 |
|
DNA polymerase IV; Validated
Pssm-ID: 179337 [Multi-domain] Cd Length: 407 Bit Score: 519.59 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYALGSPLEIAKMIQ 80
Cdd:PRK01810 51 EARAYGIRTTMPLWEAKRLCPQLIVRRPNFDRYREASRQMFQILSEFTPLVQPVSIDEGYLDITDCYALGSPLEIAKMIQ 130
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 81 QALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQLAKGD 160
Cdd:PRK01810 131 QRLLTELQLPCSIGIAPNKFLAKMASDMKKPLGITVLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKAD 210
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 161 EHIIRAKIGKHGVDLQKRAKGMDDREVDPNQMGQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVSYNIQ 240
Cdd:PRK01810 211 EHILRAKLGINGVRLQRRANGIDDRPVDPEAIYQFKSVGNSTTLSHDMDEEKELLDVLRRLSKSVSKRLQKKTVVSYNVQ 290
|
250 260 270
....*....|....*....|....*....|....*.
gi 83316477 241 IMIKYHDRRTVTRSKQLKNAIWEERVIFQAASRLWK 276
Cdd:PRK01810 291 IMIRYHDRRTITRSKTLKNPIWEKRDIFQAASRLFK 326
|
|
| PolY_Pol_IV_kappa |
cd03586 |
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ... |
1-276 |
7.85e-121 |
|
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: 348.36 E-value: 7.85e-121
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYAL-GSPLEIAKMI 79
Cdd:cd03586 42 EARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQIMEILREYTPLVEPLSIDEAYLDVTDYVRLfGSATEIAKEI 121
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 80 QQALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQLAKG 159
Cdd:cd03586 122 RARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVIPPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKL 201
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 160 DEHIIRAKIGKHGVDLQKRAKGMDDREVDPNQmgQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVSYNI 239
Cdd:cd03586 202 DVELLKKLFGKSGRRLYELARGIDNRPVEPDR--ERKSIGVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTV 279
|
250 260 270
....*....|....*....|....*....|....*..
gi 83316477 240 QIMIKYHDRRTVTRSKQLKNAIWEERVIFQAASRLWK 276
Cdd:cd03586 280 TVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLE 316
|
|
| DinP |
COG0389 |
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ... |
1-276 |
2.15e-108 |
|
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];
Pssm-ID: 440158 [Multi-domain] Cd Length: 336 Bit Score: 317.09 E-value: 2.15e-108
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYAL-GSPLEIAKMI 79
Cdd:COG0389 45 EARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRDVSRRVMAILERYTPLVEPLSIDEAFLDVTGSARLfGSAEAIARRI 124
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 80 QQALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQLAKG 159
Cdd:COG0389 125 RRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLTVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAAL 204
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 160 DEHIIRAKIGKHGVDLQKRAKGMDDREVDPNQmgQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVSYNI 239
Cdd:COG0389 205 PRAELRRRFGKVGERLYRLARGIDPRPVEPRR--PRKSIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTV 282
|
250 260 270
....*....|....*....|....*....|....*..
gi 83316477 240 QIMIKYHDRRTVTRSKQLKNAIWEERVIFQAASRLWK 276
Cdd:COG0389 283 TVKLRTSDFRTTTRSRTLPEPTDDTAELLRAARELLE 319
|
|
| IMS |
pfam00817 |
impB/mucB/samB family; These proteins are involved in UV protection (Swiss). |
1-107 |
3.55e-42 |
|
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
Pssm-ID: 425885 [Multi-domain] Cd Length: 148 Bit Score: 141.56 E-value: 3.55e-42
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRF-TEKIQPFSIDEGYLDITDCYAL-GSPLEIAKM 78
Cdd:pfam00817 40 EARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKIFEILRRFsTPKVEQASIDEAFLDLTGLEKLfGAEEALAKR 119
|
90 100
....*....|....*....|....*....
gi 83316477 79 IQQALLTELQLPCSIGIAPNLFLAKTASD 107
Cdd:pfam00817 120 LRREIAEETGLTCSIGIAPNKLLAKLASD 148
|
|
| TIGR03491 |
TIGR03491 |
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family ... |
130-180 |
8.63e-04 |
|
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: 40.39 E-value: 8.63e-04
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 83316477 130 SVAEMHGIGEKTAEKLKDIHIHTIEQLAKGDEHIIRAKIGKH---GVDLQKRAK 180
Cdd:TIGR03491 208 HLSLVPGIGPSRYRLLQELGIHTLEDLAAADPNDLEDFGEQGlgvAEQLVQQAR 261
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK01810 |
PRK01810 |
DNA polymerase IV; Validated |
1-276 |
0e+00 |
|
DNA polymerase IV; Validated
Pssm-ID: 179337 [Multi-domain] Cd Length: 407 Bit Score: 519.59 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYALGSPLEIAKMIQ 80
Cdd:PRK01810 51 EARAYGIRTTMPLWEAKRLCPQLIVRRPNFDRYREASRQMFQILSEFTPLVQPVSIDEGYLDITDCYALGSPLEIAKMIQ 130
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 81 QALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQLAKGD 160
Cdd:PRK01810 131 QRLLTELQLPCSIGIAPNKFLAKMASDMKKPLGITVLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKAD 210
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 161 EHIIRAKIGKHGVDLQKRAKGMDDREVDPNQMGQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVSYNIQ 240
Cdd:PRK01810 211 EHILRAKLGINGVRLQRRANGIDDRPVDPEAIYQFKSVGNSTTLSHDMDEEKELLDVLRRLSKSVSKRLQKKTVVSYNVQ 290
|
250 260 270
....*....|....*....|....*....|....*.
gi 83316477 241 IMIKYHDRRTVTRSKQLKNAIWEERVIFQAASRLWK 276
Cdd:PRK01810 291 IMIRYHDRRTITRSKTLKNPIWEKRDIFQAASRLFK 326
|
|
| PolY_Pol_IV_kappa |
cd03586 |
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ... |
1-276 |
7.85e-121 |
|
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: 348.36 E-value: 7.85e-121
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYAL-GSPLEIAKMI 79
Cdd:cd03586 42 EARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQIMEILREYTPLVEPLSIDEAYLDVTDYVRLfGSATEIAKEI 121
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 80 QQALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQLAKG 159
Cdd:cd03586 122 RARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVIPPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKL 201
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 160 DEHIIRAKIGKHGVDLQKRAKGMDDREVDPNQmgQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVSYNI 239
Cdd:cd03586 202 DVELLKKLFGKSGRRLYELARGIDNRPVEPDR--ERKSIGVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTV 279
|
250 260 270
....*....|....*....|....*....|....*..
gi 83316477 240 QIMIKYHDRRTVTRSKQLKNAIWEERVIFQAASRLWK 276
Cdd:cd03586 280 TVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLE 316
|
|
| DinP |
COG0389 |
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ... |
1-276 |
2.15e-108 |
|
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];
Pssm-ID: 440158 [Multi-domain] Cd Length: 336 Bit Score: 317.09 E-value: 2.15e-108
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYAL-GSPLEIAKMI 79
Cdd:COG0389 45 EARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRDVSRRVMAILERYTPLVEPLSIDEAFLDVTGSARLfGSAEAIARRI 124
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 80 QQALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQLAKG 159
Cdd:COG0389 125 RRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLTVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAAL 204
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 160 DEHIIRAKIGKHGVDLQKRAKGMDDREVDPNQmgQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVSYNI 239
Cdd:COG0389 205 PRAELRRRFGKVGERLYRLARGIDPRPVEPRR--PRKSIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTV 282
|
250 260 270
....*....|....*....|....*....|....*..
gi 83316477 240 QIMIKYHDRRTVTRSKQLKNAIWEERVIFQAASRLWK 276
Cdd:COG0389 283 TVKLRTSDFRTTTRSRTLPEPTDDTAELLRAARELLE 319
|
|
| PRK02406 |
PRK02406 |
DNA polymerase IV; Validated |
1-255 |
1.28e-82 |
|
DNA polymerase IV; Validated
Pssm-ID: 235035 [Multi-domain] Cd Length: 343 Bit Score: 251.58 E-value: 1.28e-82
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDC-YALGSPLEIAKMI 79
Cdd:PRK02406 39 EARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIREIFRRYTDLIEPLSLDEAYLDVTDNkLCIGSATLIAQEI 118
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 80 QQALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQLAKG 159
Cdd:PRK02406 119 RQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPEEVDAFLATLPVEKIPGVGKVTAEKLHALGIYTCADLQKY 198
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 160 DEHIIRAKIGKHGVDLQKRAKGMDDREVDPNQmgQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQK-------R 232
Cdd:PRK02406 199 DLAELIRHFGKFGRRLYERARGIDERPVKPDR--ERKSVGVERTFAEDLYDLEACLAELPRLAEKLERRLERakpdkriK 276
|
250 260
....*....|....*....|...
gi 83316477 233 TLVsyniqIMIKYHDRRTVTRSK 255
Cdd:PRK02406 277 TVG-----VKLKFADFQQTTKEH 294
|
|
| PRK14133 |
PRK14133 |
DNA polymerase IV; Provisional |
1-274 |
1.26e-69 |
|
DNA polymerase IV; Provisional
Pssm-ID: 184529 [Multi-domain] Cd Length: 347 Bit Score: 218.43 E-value: 1.26e-69
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQ---LVVRHPNftlYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYAlgSPLEIAK 77
Cdd:PRK14133 47 EARKYGVHSAMPVFMAKKRCPHgifLPVRHER---YKEVSKNIFKILYEVTPIVEPVSIDEAYLDITNIKE--EPIKIAK 121
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 78 MIQQALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQLA 157
Cdd:PRK14133 122 YIKKKVKKETGLTLSVGISYNKFLAKLASDWNKPDGIKIITEDMIPDILKPLPISKVHGIGKKSVEKLNNIGIYTIEDLL 201
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 158 KGDEHIIRAKIGKHGVDLQKRAKGMDDREVDpnQMGQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVSY 237
Cdd:PRK14133 202 KLSREFLIEYFGKFGVEIYERIRGIDYREVE--VSRERKSIGKETTLKKDTKDKEELKKYLKDFSNIISEELKKRNLYGK 279
|
250 260 270
....*....|....*....|....*....|....*..
gi 83316477 238 NIQIMIKYHDRRTVTRSKQLKNAIWEERVIFQAASRL 274
Cdd:PRK14133 280 TVTVKIKTSDFQTHTKSKTLNDYIRDKEEIYNVACEI 316
|
|
| PRK03103 |
PRK03103 |
DNA polymerase IV; Reviewed |
1-276 |
3.86e-66 |
|
DNA polymerase IV; Reviewed
Pssm-ID: 235104 [Multi-domain] Cd Length: 409 Bit Score: 211.40 E-value: 3.86e-66
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYAL-GSPLEIAKMI 79
Cdd:PRK03103 49 LAKAYGVKTAERLWEAQQKCPDLVVVKPRMQRYIDVSLQITRILEDFTDLVEPFSIDEQFLDVTGSQKLfGSPLEIAQKI 128
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 80 QQALLTELQLPCSIGIAPNLFLAKTASDM---KKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQL 156
Cdd:PRK03103 129 QQRIMRETGVYARVGIGPNKLLAKMACDNfakKNPDGLFTLDKEDVPADLWPLPVRKLFGVGSRMEKHLRRMGIRTIGQL 208
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 157 AKGDEHIIRAKIGKHGVDLQKRAKGMDDREVDPNQMGQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVS 236
Cdd:PRK03103 209 ANTPLERLKKRWGINGEVLWRTANGIDYSPVTPHSLDRQKAIGHQMTLPRDYRGFEEIKVVLLELCEEVCRRARAKGYMG 288
|
250 260 270 280
....*....|....*....|....*....|....*....|...
gi 83316477 237 YNIQIMIK---YHDRRTVTRSKQLKNAIWEERVIFQAASRLWK 276
Cdd:PRK03103 289 RTVSVSLRgadFDWPTGFSRQMTLPEPTNLAMEVYEAACKLFH 331
|
|
| PRK02794 |
PRK02794 |
DNA polymerase IV; Provisional |
2-274 |
5.40e-58 |
|
DNA polymerase IV; Provisional
Pssm-ID: 179473 [Multi-domain] Cd Length: 419 Bit Score: 190.53 E-value: 5.40e-58
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 2 AREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYAL--GSPleiAKM- 78
Cdd:PRK02794 80 ARIHGVRSAMPMFKALKLCPDAVVIKPDMEKYVRVGREVRAMMQALTPLVEPLSIDEAFLDLSGTERLhgAPP---AVVl 156
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 79 --IQQALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQL 156
Cdd:PRK02794 157 arFARRVEREIGITVSVGLSYNKFLAKIASDLDKPRGFSVIGRAEALAFLAPKPVGIIWGVGPATAARLARDGIRTIGDL 236
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 157 AKGDEHIIRAKIGKHGVDLQKRAKGMDDREVDPNQmgQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVS 236
Cdd:PRK02794 237 QRADEADLMRRFGSMGLRLWRLARGIDDRKVSPDR--EAKSVSAETTFETDLSDFEDLEPILWRLSEKVSRRLKAAGLAG 314
|
250 260 270
....*....|....*....|....*....|....*...
gi 83316477 237 YNIQIMIKYHDRRTVTRSKQLKNAIWEERVIFQAASRL 274
Cdd:PRK02794 315 RTVTLKLKTADFRLRTRRRTLEDPTQLADRIFRTAREL 352
|
|
| PolY_Pol_V_umuC |
cd01700 |
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ... |
1-249 |
2.37e-53 |
|
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: 176.58 E-value: 2.37e-53
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQL--VVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYALGSPLEIAKM 78
Cdd:cd01700 41 EAKALGIKMGSPYFKVPDLLERHgvAVFSSNYALYGDMSRRIMSILERFSPDVEVYSIDESFLDLTGSLRFGDLEELARK 120
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 79 IQQALLTELQLPCSIGIAPNLFLAKTASDM--KKP--LGITVLRKRDIPEIIWPRS-VAEMHGIGEKTAEKLKDIHIHTI 153
Cdd:cd01700 121 IRRRILQETGIPVTVGIGPTKTLAKLANDLakKKNpyGGVVDLTDEEVRDKLLKILpVGDVWGIGRRTAKKLNAMGIHTA 200
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 154 EQLAKGDEHIIRAKIGKHGVDLQKRAKGMDDREVDPNQMGQhKSVGNSMTFSKDMDEEKE----LLDMLERlsksVSKRL 229
Cdd:cd01700 201 GDLAQADPDLLRKKFGVVGERLVRELNGIDCLPLEEYPPPK-KSIGSSRSFGRDVTDLDElkqaLAEYAER----AAEKL 275
|
250 260
....*....|....*....|..
gi 83316477 230 QKRTLVSYNIQIMIKY--HDRR 249
Cdd:cd01700 276 RRQKSVARTISVFIGTsgFSRQ 297
|
|
| PRK03348 |
PRK03348 |
DNA polymerase IV; Provisional |
1-274 |
2.57e-51 |
|
DNA polymerase IV; Provisional
Pssm-ID: 235118 [Multi-domain] Cd Length: 454 Bit Score: 173.97 E-value: 2.57e-51
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQL-VVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYALGSP--LEIAK 77
Cdd:PRK03348 49 EARVFGARSAMPMHQARRLVGNGaVVLPPRFVVYRAASRRVFDTLRELSPVVEQLSFDEAFVEPAELAGASAEevEAFAE 128
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 78 MIQQALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQLA 157
Cdd:PRK03348 129 RLRARVREETGLPASVGAGSGKQIAKIASGLAKPDGIRVVPPGEERELLAPLPVRRLWGIGPVTEEKLHRLGIETIGDLA 208
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 158 KGDEHIIRAKIGK-HGVDLQKRAKGMDDREVDPNqmGQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVS 236
Cdd:PRK03348 209 ALSEAEVANLLGAtVGPALHRLARGIDDRPVAER--AEAKQISAESTFAVDLTTRAQLREAIERIAEHAHRRLLKDGRGA 286
|
250 260 270
....*....|....*....|....*....|....*...
gi 83316477 237 YNIQIMIKYHDRRTVTRSKQLKNAIWEERVIFQAASRL 274
Cdd:PRK03348 287 RTVTVKLRKSDFSTLTRSATLPYATDDAAVLAATARRL 324
|
|
| PolY |
cd00424 |
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ... |
1-254 |
5.52e-49 |
|
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: 165.23 E-value: 5.52e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDC-YALGSPLEIAKMI 79
Cdd:cd00424 43 EARKYGVKRGMPVREARKMCPNLILVPARLDLYRRLSERLLSELEEVAPLVEVASIDELFLDLTGSaRLLGLGSEVALRI 122
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 80 QQALLTEL-QLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQLAK 158
Cdd:cd00424 123 KRHIAEQLgGITASIGIASNKLLAKLAAKYAKPDGLTILDPEDLPGFLSKLPLTDLPGIGAVTAKRLEAVGINPIGDLLA 202
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 159 GDEHIIRAKIG-KHGVDLQKRAKGMDDREVDPNqmGQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVSY 237
Cdd:cd00424 203 ASPDALLALWGgVSGERLWYALRGIDDEPLSPP--RPRKSFSHERVLPRDSRNAEDARPLLRLLLEKLARRLRRDGRGAT 280
|
250
....*....|....*..
gi 83316477 238 NIQIMIKYHDRRTVTRS 254
Cdd:cd00424 281 RLRLWLRTVDGRWSGHA 297
|
|
| PolY_Rev1 |
cd01701 |
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ... |
1-276 |
1.21e-44 |
|
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: 155.55 E-value: 1.21e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYALGS--PLEIAKM 78
Cdd:cd01701 92 EARSYGIKNGMWVGQAKKLCPQLVTLPYDFEAYEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLEETYelPEELAEA 171
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 79 IQQALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHT--IEQL 156
Cdd:cd01701 172 IRNEIRETTGCSASVGIGPNILLARLATRKAKPDGQYHLSAEKVEEFLSQLKVGDLPGVGSSLAEKLVKLFGDTcgGLEL 251
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 157 AKGDEHIIRAKIG-KHGVDLQKRAKGMDDREVDPNQmgQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQK--RT 233
Cdd:cd01701 252 RSKTKEKLQKVLGpKTGEKLYDYCRGIDDRPVTGEK--ERKSVSAEINYGIRFTNVDDVEQFLQRLSEELSKRLEEsnVT 329
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|....*.
gi 83316477 234 LVSYNIQIMI----------KYHDRR---TVTRSKQLKNAIWEERVIFQAASRLWK 276
Cdd:cd01701 330 GRQITLKLMKrapgapieppKYMGHGicdSFSKSSTLGVATDDSGVIGTEAKKLFR 385
|
|
| PRK03858 |
PRK03858 |
DNA polymerase IV; Validated |
1-274 |
2.92e-43 |
|
DNA polymerase IV; Validated
Pssm-ID: 179663 [Multi-domain] Cd Length: 396 Bit Score: 151.68 E-value: 2.92e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYAL-GSPLEIAKMI 79
Cdd:PRK03858 44 EAKAYGVRTAMGGRQARRLCPQAVVVPPRMSAYSRASKAVFEVFRDTTPLVEGLSIDEAFLDVGGLRRIsGTPVQIAARL 123
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 80 QQALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQLAKG 159
Cdd:PRK03858 124 RRRVREEVGLPITVGVARTKFLAKVASQVAKPDGLLVVPPDRELAFLHPLPVRRLWGVGPVTAAKLRAHGITTVGDVAEL 203
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 160 DEHIIRAKIGK-HGVDLQKRAKGMDDREVDPNQmgQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVSYN 238
Cdd:PRK03858 204 PESALVSLLGPaAGRHLHALAHNRDPRRVETGR--RRRSVGAQRALGRGPNSPAEVDAVVVALVDRVARRMRAAGRTGRT 281
|
250 260 270
....*....|....*....|....*....|....*.
gi 83316477 239 IQIMIKYHDRRTVTRSKQLKNAIWEERVIFQAASRL 274
Cdd:PRK03858 282 VVLRLRFDDFTRATRSHTLPRPTASTATLLAAARDL 317
|
|
| IMS |
pfam00817 |
impB/mucB/samB family; These proteins are involved in UV protection (Swiss). |
1-107 |
3.55e-42 |
|
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
Pssm-ID: 425885 [Multi-domain] Cd Length: 148 Bit Score: 141.56 E-value: 3.55e-42
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRF-TEKIQPFSIDEGYLDITDCYAL-GSPLEIAKM 78
Cdd:pfam00817 40 EARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKIFEILRRFsTPKVEQASIDEAFLDLTGLEKLfGAEEALAKR 119
|
90 100
....*....|....*....|....*....
gi 83316477 79 IQQALLTELQLPCSIGIAPNLFLAKTASD 107
Cdd:pfam00817 120 LRREIAEETGLTCSIGIAPNKLLAKLASD 148
|
|
| PRK03352 |
PRK03352 |
DNA polymerase IV; Validated |
1-274 |
1.92e-35 |
|
DNA polymerase IV; Validated
Pssm-ID: 179564 [Multi-domain] Cd Length: 346 Bit Score: 129.76 E-value: 1.92e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITdcyaLGSPLEIAKMIQ 80
Cdd:PRK03352 53 EARAFGVRAGMPLRTAARRCPDAVFLPSDPAAYDAASEEVMATLRDLGVPVEVWGWDEAFLGVD----TDDPEALAEEIR 128
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 81 QALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQLAKGD 160
Cdd:PRK03352 129 AAVLERTGLSCSVGIGDNKLRAKIATGFAKPAGVFRLTDANWMAVMGDRPTDALWGVGPKTAKRLAALGITTVADLAAAD 208
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 161 EHIIRAKIG-KHGVDLQKRAKGMDDREVDpNQMGQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVSYNI 239
Cdd:PRK03352 209 PAELAATFGpTTGPWLLLLARGGGDTEVS-AEPWVPRSRSREVTFPQDLTDRAEVESAVRELARRVLDEVVAEGRPVTRV 287
|
250 260 270
....*....|....*....|....*....|....*
gi 83316477 240 QIMIKYHDRRTVTRSKQLKNAIWEERVIFQAASRL 274
Cdd:PRK03352 288 AVKVRTATFYTRTKIRKLPEPTTDPDVIEAAALDV 322
|
|
| PolY_Pol_eta |
cd01702 |
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ... |
1-276 |
4.36e-32 |
|
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: 121.27 E-value: 4.36e-32
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRH-PNF----------------------TLYREASFQMFQILSRFTEKIQPFSID 57
Cdd:cd01702 39 AARAFGVTRFMTIDEAKKKCPDLILAHvATYkkgedeadyhenpsparhkvslDPYRRASRKILNILKRFGDVVEKASID 118
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 58 EGYLDitdcyaLGSplEIAKMIQQALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGI 137
Cdd:cd01702 119 EAYLD------LGS--RIVEEIRQQVYDELGYTCSAGIAHNKMLAKLASGMNKPNAQTILRNDAVASFLSSLPITSIRGL 190
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 138 GEKTAEKLKDIH----IHTIEQLAKGDEHIIRAKIGKHGVDLQKRAKGMDDREVDPNQmgQHKSVGNSMTFS-KDMDEEK 212
Cdd:cd01702 191 GGKLGEEIIDLLglptEGDVAGFRSSESDLQEHFGEKLGEWLYNLLRGIDHEPVKPRP--LPKSMGSSKNFPgKTALSTE 268
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 83316477 213 ELLDMLERLSKSVSKRLQK---------RTLVsyniqIMIKyHDRRTVTRSKQLKNAIWEERVIFQAASRLWK 276
Cdd:cd01702 269 DVQHWLLVLASELNSRLEDdryennrrpKTLV-----LSLR-QRGDGVRRSRSCALPRYDAQKIVKDAFKLIK 335
|
|
| PRK01216 |
PRK01216 |
DNA polymerase IV; Validated |
1-276 |
3.06e-29 |
|
DNA polymerase IV; Validated
Pssm-ID: 179251 [Multi-domain] Cd Length: 351 Bit Score: 113.35 E-value: 3.06e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITD-CYALGSPLEIAKMI 79
Cdd:PRK01216 49 EARKLGIKAGMPIVEAKKILPNAVYLPMRKEVYQQVSNRIMKLLREYSEKIEIASIDEAYLDISDkVKNYQDAYNLGLEI 128
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 80 QQALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTIEQLAKG 159
Cdd:PRK01216 129 KNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRFINELDIADIPGIGDITAEKLKKLGVNKLVDTLRI 208
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 160 DEHIIRAKIGKHGVD-LQKRAKgmdDREVDPNQMGQHKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVSYN 238
Cdd:PRK01216 209 EFDELKGIIGEAKAKyLFSLAR---NEYNEPVRARVRKSIGRYVTLPRNTRDLEEIKPYLKRAIEEAYYKLDGIPKAIHV 285
|
250 260 270
....*....|....*....|....*....|....*...
gi 83316477 239 IQIMikyHDRRTVTRSKQLKNAIWEERVIFQAASRLWK 276
Cdd:PRK01216 286 VAIM---EDLDIVSRGRTFTHGISKETAYREAVRLLQK 320
|
|
| PolY_Pol_iota |
cd01703 |
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ... |
1-231 |
6.72e-24 |
|
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: 99.08 E-value: 6.72e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLV-VRHPNFTLYREASFQMFQILSRFT--EKIQPFSIDEGYLDITDC-YALGSplEIA 76
Cdd:cd01703 39 EARRLGVKKLMSIKDAKEICPDLVlVNGEDLTPFRDMSKKVYRLLRSYSwnDRVERLGFDENFMDVTEMrLLVAS--HIA 116
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 77 KMIQQALLTELQLPCSIGIAPNLFLAKTASDMKKPLGITVL---RKRDIPEIIWPRSVAEMHGIGEKTAEKLKDIHIHTI 153
Cdd:cd01703 117 YEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTLlppSCADLMDFMDLHDLRKIPGIGYKTAAKLEAHGISSV 196
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 154 EQLAKGDEHI---------------IRAKIGKH-GVDLQKRAKGMDDREVDPNQmGQHKSVGNSMTFSK-DMDEEKELLD 216
Cdd:cd01703 197 RDLQEFSNRNrqtvgaapsllelllMVKEFGEGiGQRIWKLLFGRDTSPVKPAS-DFPQQISIEDSYKKcSLEEIREARN 275
|
250
....*....|....*
gi 83316477 217 MLERLSKSVSKRLQK 231
Cdd:cd01703 276 KIEELLASLLERMKQ 290
|
|
| IMS_C |
pfam11799 |
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss). |
195-276 |
6.44e-17 |
|
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: 74.13 E-value: 6.44e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 195 HKSVGNSMTFSKDMDEEKELLDMLERLSKSVSKRLQKRTLVSYNIQIMIKYHDRRTVTRSKQLKNAIWEERVIFQAASRL 274
Cdd:pfam11799 1 RKSIGAERTFGRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKIRYSDFRTITRSVTLPSPTDDTDEIYRAALRL 80
|
..
gi 83316477 275 WK 276
Cdd:pfam11799 81 LR 82
|
|
| PolY_like |
cd03468 |
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ... |
1-270 |
1.26e-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: 78.19 E-value: 1.26e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAKRLCPQLVVrHPNFtlyREASFQMFQILS----RFTEKIQPFSIDEGYLDITDCYALgSPLEIA 76
Cdd:cd03468 42 AARAAGVRPGMPLAEALALCPNLQV-VEYD---PEADARALQELAlwllRFTPLVALDGPDGLLLDVTGCLHL-FGGEDA 116
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 77 KMIQQ-ALLTELQLPCSIGIAPNLFLAKTASDMKKPLGI---TVLRKRdipEIIWPRSVAEMHGIGEKTAEKLKDIHIHT 152
Cdd:cd03468 117 LAASLrAALATLGLSARAGIADTPGAAWLLARAGGGRGVlrrEALAAA---LVLLAPLPVAALRLPPETVELLARLGLRT 193
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 153 IEQLAKGDEHIIRAKIGKHGVDLQKRAKGMDDREVD--PNQMGQHKSVgnSMTFskDMDEEKELLDMLERLSKSVSKRLQ 230
Cdd:cd03468 194 LGDLAALPRAELARRFGLALLLRLDQAYGRDPEPLLfsPPPPAFDFRL--ELQL--EEPIARGLLFPLRRLLEQLCAFLA 269
|
250 260 270 280
....*....|....*....|....*....|....*....|.
gi 83316477 231 KRTLVSYniQIMIK-YHDRRTVTRSKQLKNAIWEERVIFQA 270
Cdd:cd03468 270 LRGLGAR--RLSLTlFREDGRVTRVLVGLARPSRDDLPLLR 308
|
|
| PTZ00205 |
PTZ00205 |
DNA polymerase kappa; Provisional |
2-257 |
3.16e-15 |
|
DNA polymerase kappa; Provisional
Pssm-ID: 140232 [Multi-domain] Cd Length: 571 Bit Score: 75.06 E-value: 3.16e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 2 AREYGIRTTMPLWEAKRLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITdCY-----ALGSPLEIA 76
Cdd:PTZ00205 175 ARGRGIRQGMPGFLALKICPNLLILPPDFDAYNEESNTVRRIVAEYDPNYISFGLDELTLEVS-AYierfeGTKTAEDVA 253
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 77 KMIQQALLTELQLPCSIGIAPNLFLAKTASDMKKPLG---ITVLRKRDIPEIIWPRSVAEMHGIGEKTAEKLK------- 146
Cdd:PTZ00205 254 SELRVRVFGETKLTASAGIGPTAALAKIASNINKPNGqhdLNLHTRGDVMTYVRDLGLRSVPGVGKVTEALLKglgittl 333
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 147 -DIHIHTIEQLAKGDEHIIRAKIGKHGVDLQ--KRAKGMDDREVDPNQMGQHKSVGNSMTFsKDMDEEKELLDMLERLSK 223
Cdd:PTZ00205 334 sDIYNRRVELCYILHNNLFRFLLGASIGIMQwpDAATAANTENCEGATGGQRKAISSERSF-TTPRTKEGLQEMVDTVFN 412
|
250 260 270
....*....|....*....|....*....|....
gi 83316477 224 SVSKRLQKRTLVSYNIQIMIKYHDRRTVTRSKQL 257
Cdd:PTZ00205 413 GAYEEMRKSELMCRQISLTIRWASYRYQQYTKSL 446
|
|
| umuC |
PRK03609 |
translesion error-prone DNA polymerase V subunit UmuC; |
1-165 |
6.55e-11 |
|
translesion error-prone DNA polymerase V subunit UmuC;
Pssm-ID: 179607 [Multi-domain] Cd Length: 422 Bit Score: 62.09 E-value: 6.55e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 1 EAREYGIRTTMPLWEAK--RLCPQLVVRHPNFTLYREASFQMFQILSRFTEKIQPFSIDEGYLDITDCYALGSPLEIAKM 78
Cdd:PRK03609 43 EAKALGIKMGDPWFKQKdlFRRCGVVCFSSNYELYADMSNRVMSTLEELSPRVEIYSIDEAFCDLTGVRNCRDLTDFGRE 122
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 83316477 79 IQQALLTELQLPCSIGIAPNLFLAKTASDMKKPL-----GITVLRKRD-IPEIIWPRSVAEMHGIGEKTAEKLKDIHIHT 152
Cdd:PRK03609 123 IRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKWqrqtgGVVDLSNLErQRKLLSLQPVEEVWGVGRRISKKLNAMGIKT 202
|
170
....*....|...
gi 83316477 153 IEQLAKGDEHIIR 165
Cdd:PRK03609 203 ALDLADTNIRFIR 215
|
|
| IMS_HHH |
pfam11798 |
IMS family HHH motif; These proteins are involved in UV protection, eg. |
121-150 |
2.70e-06 |
|
IMS family HHH motif; These proteins are involved in UV protection, eg.
Pssm-ID: 432081 [Multi-domain] Cd Length: 32 Bit Score: 43.15 E-value: 2.70e-06
10 20 30
....*....|....*....|....*....|
gi 83316477 121 DIPEIIWPRSVAEMHGIGEKTAEKLKDIHI 150
Cdd:pfam11798 3 DVPEFLWPLPISKIPGIGKKLAEKLKALGI 32
|
|
| TIGR03491 |
TIGR03491 |
RecB family nuclease, putative, TM0106 family; Members of this uncharacterized protein family ... |
130-180 |
8.63e-04 |
|
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: 40.39 E-value: 8.63e-04
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 83316477 130 SVAEMHGIGEKTAEKLKDIHIHTIEQLAKGDEHIIRAKIGKH---GVDLQKRAK 180
Cdd:TIGR03491 208 HLSLVPGIGPSRYRLLQELGIHTLEDLAAADPNDLEDFGEQGlgvAEQLVQQAR 261
|
|
| H3TH |
COG3743 |
Predicted 5' DNA nuclease, flap endonuclease-1-like, helix-3-turn-helix (H3TH) domain ... |
136-180 |
9.14e-03 |
|
Predicted 5' DNA nuclease, flap endonuclease-1-like, helix-3-turn-helix (H3TH) domain [Replication, recombination and repair];
Pssm-ID: 442957 [Multi-domain] Cd Length: 92 Bit Score: 34.90 E-value: 9.14e-03
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 83316477 136 GIGEKTAEKLKDIHIHTIEQLAK-GDEHIirAKIGKHGVDLQKRAK 180
Cdd:COG3743 30 GIGPKIEKKLNELGIFTFAQIAAwTPEDI--AWVDEELGGFKGRIE 73
|
|
| |
