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Conserved domains on  [gi|530382162|ref|XP_005249243|]
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DNA polymerase eta isoform X1 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PolY super family cl28996
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 1-366 2.61e-140

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.


The actual alignment was detected with superfamily member cd01702:

Pssm-ID: 452909 [Multi-domain]  Cd Length: 359  Bit Score: 413.25  E-value: 2.61e-140
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   1 MWADDAKKLCPDLLLAQVR----------------ESRGKANLTKYREASVEVMEIMSRF-AVIERASIDEAYVDLtsav 63
Cdd:cd01702   49 MTIDEAKKKCPDLILAHVAtykkgedeadyhenpsPARHKVSLDPYRRASRKILNILKRFgDVVEKASIDEAYLDL---- 124

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  64 qerlqklqgqpisadllpstyieglpqgpttaeetvqkegmrkqglfqwldslqidnltspdlqltvGAVIVEEMRAAIE 143
Cdd:cd01702  125 -------------------------------------------------------------------GSRIVEEIRQQVY 137

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 144 RETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQF--TE 221
Cdd:cd01702  138 DELGYTCSAGIAHNKMLAKLASGMNKPNAQTILRNDAVASFLSSLPITSIRGLGGKLGEEIIDLLGLPTEGDVAGFrsSE 217

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 222 SQLQSHFGEKNGSWLYAMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATrEQVQWWLLQLAQELEERLTKDRNDNDRVA 301
Cdd:cd01702  218 SDLQEHFGEKLGEWLYNLLRGIDHEPVKPRPLPKSMGSSKNFPGKTALST-EDVQHWLLVLASELNSRLEDDRYENNRRP 296

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 530382162 302 TQLVVSIRVQGDKrlSSLRRCCALTRYDAHKMSHDAFTVIKNCNTSGIQTEWSPPLTMLFLCATK 366
Cdd:cd01702  297 KTLVLSLRQRGDG--VRRSRSCALPRYDAQKIVKDAFKLIKAINEEGLGLAWNYPLTLLSLSFTK 359
zf_UBZ pfam18439
Ubiquitin-Binding Zinc Finger; This is ubiquitin-binding zinc finger (UBZ) domain found in DNA ...
 569-599 1.56e-11

Ubiquitin-Binding Zinc Finger; This is ubiquitin-binding zinc finger (UBZ) domain found in DNA polymerase eta (EC:2.7.7.7). It is important in the recruitment of the polymerase to the stalled replication machinery in translesion synthesis. The UBZ domain adopts a classical C2H2 zinc-finger structure characterized by a beta-beta-alpha fold.


:

Pssm-ID: 465769  Cd Length: 32  Bit Score: 59.06  E-value: 1.56e-11
                          10        20        30
                  ....*....|....*....|....*....|.
gi 530382162  569 DQVPCEKCGSLVPVWDMPEHMDYHFALELQK 599
Cdd:pfam18439   1 DTYVCPRCGKEIPESELPEHEDWHFAKDLQR 31
 
Name Accession Description Interval E-value
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
 1-366 2.61e-140

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: 413.25  E-value: 2.61e-140
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   1 MWADDAKKLCPDLLLAQVR----------------ESRGKANLTKYREASVEVMEIMSRF-AVIERASIDEAYVDLtsav 63
Cdd:cd01702   49 MTIDEAKKKCPDLILAHVAtykkgedeadyhenpsPARHKVSLDPYRRASRKILNILKRFgDVVEKASIDEAYLDL---- 124

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  64 qerlqklqgqpisadllpstyieglpqgpttaeetvqkegmrkqglfqwldslqidnltspdlqltvGAVIVEEMRAAIE 143
Cdd:cd01702  125 -------------------------------------------------------------------GSRIVEEIRQQVY 137

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 144 RETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQF--TE 221
Cdd:cd01702  138 DELGYTCSAGIAHNKMLAKLASGMNKPNAQTILRNDAVASFLSSLPITSIRGLGGKLGEEIIDLLGLPTEGDVAGFrsSE 217

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 222 SQLQSHFGEKNGSWLYAMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATrEQVQWWLLQLAQELEERLTKDRNDNDRVA 301
Cdd:cd01702  218 SDLQEHFGEKLGEWLYNLLRGIDHEPVKPRPLPKSMGSSKNFPGKTALST-EDVQHWLLVLASELNSRLEDDRYENNRRP 296

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 530382162 302 TQLVVSIRVQGDKrlSSLRRCCALTRYDAHKMSHDAFTVIKNCNTSGIQTEWSPPLTMLFLCATK 366
Cdd:cd01702  297 KTLVLSLRQRGDG--VRRSRSCALPRYDAQKIVKDAFKLIKAINEEGLGLAWNYPLTLLSLSFTK 359
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 5-309 1.14e-51

Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 181.50  E-value: 1.14e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   5 DAKKLCPDLLLAqvresrgKANLTKYREASVEVMEIMSRFA-VIERASIDEAYVDLTSAvqerlQKLQGQPisadllpst 83
Cdd:COG0389   59 QARRLCPDLVVL-------PPDFELYRDVSRRVMAILERYTpLVEPLSIDEAFLDVTGS-----ARLFGSA--------- 117

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  84 yieglpqgpttaeetvqkegmrkqglfqwldslqidnltspdlqltvgAVIVEEMRAAIERETGFQCSAGISHNKVLAKL 163
Cdd:COG0389  118 ------------------------------------------------EAIARRIRRRIRRETGLTVSVGIAPNKFLAKI 149

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 164 ACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLgASVIEILGIEYMGELTQFTESQLQSHFGeKNGSWLYAMCRGI 243
Cdd:COG0389  150 ASDLAKPDGLTVIPPGEVAAFLAPLPVEKLWGVGPKT-AEKLARLGIRTIGDLAALPRAELRRRFG-KVGERLYRLARGI 227

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 530382162 244 EHDPVKPRQLPKTIGCSKNFPgkTALATREQVQWWLLQLAQELEERLTKDRndndRVATQLVVSIR 309
Cdd:COG0389  228 DPRPVEPRRPRKSIGVERTFG--EDLTDLEELEAALRRLAERLAERLRRQG----LGARTVTVKLR 287
PRK02406 PRK02406
DNA polymerase IV; Validated
 6-309 4.73e-41

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 152.58  E-value: 4.73e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   6 AKKLCPDLLLAQVResrgkanLTKYREASVEVMEIMSRF-AVIERASIDEAYVDLTSAVQerlqklqgqpisadllpsty 84
Cdd:PRK02406  54 ALKLCPDLIFVPGR-------FDVYKEVSRQIREIFRRYtDLIEPLSLDEAYLDVTDNKL-------------------- 106

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  85 ieglPQGPTTAeetvqkegmrkqglfqwldslqidnltspdlqltvgavIVEEMRAAIERETGFQCSAGISHNKVLAKLA 164
Cdd:PRK02406 107 ----CIGSATL--------------------------------------IAQEIRQDIFEELGLTASAGVAPNKFLAKIA 144

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 165 CGLNKPNRQTLVSHGSVPQLFSQMPIRKIRslG-GKLGASVIEILGIEYMGELTQFTESQLQSHFGeKNGSWLYAMCRGI 243
Cdd:PRK02406 145 SDWNKPNGLFVITPEEVDAFLATLPVEKIP--GvGKVTAEKLHALGIYTCADLQKYDLAELIRHFG-KFGRRLYERARGI 221

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 530382162 244 EHDPVKPRQLPKTIGCSKNFPgkTALATREQVQWWLLQLAQELEERLTkdRNDNDRVATQLVVSIR 309
Cdd:PRK02406 222 DERPVKPDRERKSVGVERTFA--EDLYDLEACLAELPRLAEKLERRLE--RAKPDKRIKTVGVKLK 283
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 1-165 7.93e-20

impB/mucB/samB family; These proteins are involved in UV protection (Swiss).


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 86.47  E-value: 7.93e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162    1 MWADDAKKLCPDLLLAqvresrgKANLTKYREASVEVMEIMSRFA--VIERASIDEAYVDLTSavqerLQKLQGQPISad 78
Cdd:pfam00817  50 MPVFEAKKLCPNLIVV-------PPDLELYRRASRKIFEILRRFStpKVEQASIDEAFLDLTG-----LEKLFGAEEA-- 115

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   79 llpstyieglpqgpttaeetvqkegmrkqglfqwldslqidnltspdlqltvgavIVEEMRAAIERETGFQCSAGISHNK 158
Cdd:pfam00817 116 -------------------------------------------------------LAKRLRREIAEETGLTCSIGIAPNK 140


                  ....*..
gi 530382162  159 VLAKLAC 165
Cdd:pfam00817 141 LLAKLAS 147
zf_UBZ pfam18439
Ubiquitin-Binding Zinc Finger; This is ubiquitin-binding zinc finger (UBZ) domain found in DNA ...
 569-599 1.56e-11

Ubiquitin-Binding Zinc Finger; This is ubiquitin-binding zinc finger (UBZ) domain found in DNA polymerase eta (EC:2.7.7.7). It is important in the recruitment of the polymerase to the stalled replication machinery in translesion synthesis. The UBZ domain adopts a classical C2H2 zinc-finger structure characterized by a beta-beta-alpha fold.


Pssm-ID: 465769  Cd Length: 32  Bit Score: 59.06  E-value: 1.56e-11
                          10        20        30
                  ....*....|....*....|....*....|.
gi 530382162  569 DQVPCEKCGSLVPVWDMPEHMDYHFALELQK 599
Cdd:pfam18439   1 DTYVCPRCGKEIPESELPEHEDWHFAKDLQR 31
 
Name Accession Description Interval E-value
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
 1-366 2.61e-140

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: 413.25  E-value: 2.61e-140
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   1 MWADDAKKLCPDLLLAQVR----------------ESRGKANLTKYREASVEVMEIMSRF-AVIERASIDEAYVDLtsav 63
Cdd:cd01702   49 MTIDEAKKKCPDLILAHVAtykkgedeadyhenpsPARHKVSLDPYRRASRKILNILKRFgDVVEKASIDEAYLDL---- 124

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  64 qerlqklqgqpisadllpstyieglpqgpttaeetvqkegmrkqglfqwldslqidnltspdlqltvGAVIVEEMRAAIE 143
Cdd:cd01702  125 -------------------------------------------------------------------GSRIVEEIRQQVY 137

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 144 RETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQF--TE 221
Cdd:cd01702  138 DELGYTCSAGIAHNKMLAKLASGMNKPNAQTILRNDAVASFLSSLPITSIRGLGGKLGEEIIDLLGLPTEGDVAGFrsSE 217

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 222 SQLQSHFGEKNGSWLYAMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATrEQVQWWLLQLAQELEERLTKDRNDNDRVA 301
Cdd:cd01702  218 SDLQEHFGEKLGEWLYNLLRGIDHEPVKPRPLPKSMGSSKNFPGKTALST-EDVQHWLLVLASELNSRLEDDRYENNRRP 296

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 530382162 302 TQLVVSIRVQGDKrlSSLRRCCALTRYDAHKMSHDAFTVIKNCNTSGIQTEWSPPLTMLFLCATK 366
Cdd:cd01702  297 KTLVLSLRQRGDG--VRRSRSCALPRYDAQKIVKDAFKLIKAINEEGLGLAWNYPLTLLSLSFTK 359
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 5-309 1.14e-51

Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination and repair];


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 181.50  E-value: 1.14e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   5 DAKKLCPDLLLAqvresrgKANLTKYREASVEVMEIMSRFA-VIERASIDEAYVDLTSAvqerlQKLQGQPisadllpst 83
Cdd:COG0389   59 QARRLCPDLVVL-------PPDFELYRDVSRRVMAILERYTpLVEPLSIDEAFLDVTGS-----ARLFGSA--------- 117

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  84 yieglpqgpttaeetvqkegmrkqglfqwldslqidnltspdlqltvgAVIVEEMRAAIERETGFQCSAGISHNKVLAKL 163
Cdd:COG0389  118 ------------------------------------------------EAIARRIRRRIRRETGLTVSVGIAPNKFLAKI 149

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 164 ACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLgASVIEILGIEYMGELTQFTESQLQSHFGeKNGSWLYAMCRGI 243
Cdd:COG0389  150 ASDLAKPDGLTVIPPGEVAAFLAPLPVEKLWGVGPKT-AEKLARLGIRTIGDLAALPRAELRRRFG-KVGERLYRLARGI 227

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 530382162 244 EHDPVKPRQLPKTIGCSKNFPgkTALATREQVQWWLLQLAQELEERLTKDRndndRVATQLVVSIR 309
Cdd:COG0389  228 DPRPVEPRRPRKSIGVERTFG--EDLTDLEELEAALRRLAERLAERLRRQG----LGARTVTVKLR 287
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 6-309 1.45e-49

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: 175.79  E-value: 1.45e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   6 AKKLCPDLLLAqvresrgKANLTKYREASVEVMEIMSRFA-VIERASIDEAYVDLTsavqerlqklqgqpisadllpsty 84
Cdd:cd03586   57 AKKLCPNLIFV-------PPRFDKYREVSRQIMEILREYTpLVEPLSIDEAYLDVT------------------------ 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  85 ieGLPQGPTTAEEtvqkegmrkqglfqwldslqidnltspdlqltvgavIVEEMRAAIERETGFQCSAGISHNKVLAKLA 164
Cdd:cd03586  106 --DYVRLFGSATE------------------------------------IAKEIRARIREETGLTASAGIAPNKFLAKIA 147

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 165 CGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASVIEiLGIEYMGELTQFTESQLQSHFGeKNGSWLYAMCRGIE 244
Cdd:cd03586  148 SDLNKPNGLTVIPPEDVEEFLAPLPVRKIPGVGKVTAEKLKE-LGIKTIGDLAKLDVELLKKLFG-KSGRRLYELARGID 225

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 530382162 245 HDPVKPRQLPKTIGCSKNFPgkTALATREQVQWWLLQLAQELEERLTKDrndnDRVATQLVVSIR 309
Cdd:cd03586  226 NRPVEPDRERKSIGVERTFS--EDLTDPEELLEELLELAEELAERLRKR----GLKGRTVTVKLK 284
PRK02406 PRK02406
DNA polymerase IV; Validated
 6-309 4.73e-41

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 152.58  E-value: 4.73e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   6 AKKLCPDLLLAQVResrgkanLTKYREASVEVMEIMSRF-AVIERASIDEAYVDLTSAVQerlqklqgqpisadllpsty 84
Cdd:PRK02406  54 ALKLCPDLIFVPGR-------FDVYKEVSRQIREIFRRYtDLIEPLSLDEAYLDVTDNKL-------------------- 106

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  85 ieglPQGPTTAeetvqkegmrkqglfqwldslqidnltspdlqltvgavIVEEMRAAIERETGFQCSAGISHNKVLAKLA 164
Cdd:PRK02406 107 ----CIGSATL--------------------------------------IAQEIRQDIFEELGLTASAGVAPNKFLAKIA 144

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 165 CGLNKPNRQTLVSHGSVPQLFSQMPIRKIRslG-GKLGASVIEILGIEYMGELTQFTESQLQSHFGeKNGSWLYAMCRGI 243
Cdd:PRK02406 145 SDWNKPNGLFVITPEEVDAFLATLPVEKIP--GvGKVTAEKLHALGIYTCADLQKYDLAELIRHFG-KFGRRLYERARGI 221

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 530382162 244 EHDPVKPRQLPKTIGCSKNFPgkTALATREQVQWWLLQLAQELEERLTkdRNDNDRVATQLVVSIR 309
Cdd:PRK02406 222 DERPVKPDRERKSVGVERTFA--EDLYDLEACLAELPRLAEKLERRLE--RAKPDKRIKTVGVKLK 283
PolY cd00424
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 1-342 8.82e-32

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: 126.32  E-value: 8.82e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   1 MWADDAKKLCPDLLLAqvresrgKANLTKYREASVEVMEIMSRFA-VIERASIDEAYVDLTSAVQerlqklqgqpisadl 79
Cdd:cd00424   53 MPVREARKMCPNLILV-------PARLDLYRRLSERLLSELEEVApLVEVASIDELFLDLTGSAR--------------- 110

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  80 lpstyieglpqgpttaeetvqkegmrkqglfqwldslqidnltspdlQLTVGAVIVEEMRAAI-ERETGFQCSAGISHNK 158
Cdd:cd00424  111 -----------------------------------------------LLGLGSEVALRIKRHIaEQLGGITASIGIASNK 143

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 159 VLAKLACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLgASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWLYA 238
Cdd:cd00424  144 LLAKLAAKYAKPDGLTILDPEDLPGFLSKLPLTDLPGIGAVT-AKRLEAVGINPIGDLLAASPDALLALWGGVSGERLWY 222

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 239 MCRGIEHDPVKPRQLPKTIGCSKNFPGKtaLATREQVQWWLLQLAQELEERLTKDrndnDRVATQLVVSIR-VQGDKRLS 317
Cdd:cd00424  223 ALRGIDDEPLSPPRPRKSFSHERVLPRD--SRNAEDARPLLRLLLEKLARRLRRD----GRGATRLRLWLRtVDGRWSGH 296

                        330       340
                 ....*....|....*....|....*
gi 530382162 318 SLRRCCALTRYdAHKMSHDAFTVIK 342
Cdd:cd00424  297 ADIPSRSAPRP-ISTEDGELLHALD 320
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 1-310 2.39e-27

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: 114.72  E-value: 2.39e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   1 MWADDAKKLCPDLLLAQVresrgkaNLTKYREASVEVMEI-MSRFAVIERASIDEAYVDLTSAVQERlqklqgqpisadl 79
Cdd:cd01701  102 MWVGQAKKLCPQLVTLPY-------DFEAYEEVSLTFYEIlASYTDNIEAVSCDEALIDITSLLEET------------- 161

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  80 lpstyieglpqgPTTAEEtvqkegmrkqglfqwldslqidnltspdlqltvgavIVEEMRAAIERETGFQCSAGISHNKV 159
Cdd:cd01701  162 ------------YELPEE------------------------------------LAEAIRNEIRETTGCSASVGIGPNIL 193

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 160 LAKLACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASVIEILG-IEYMGELTQFTESQLQSHFGEKNGSWLYA 238
Cdd:cd01701  194 LARLATRKAKPDGQYHLSAEKVEEFLSQLKVGDLPGVGSSLAEKLVKLFGdTCGGLELRSKTKEKLQKVLGPKTGEKLYD 273

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 530382162 239 MCRGIEHDPVKPRQLPKTIGCSKNFPgkTALATREQVQWWLLQLAQELEERLtkdrNDNDRVATQLVVSIRV 310
Cdd:cd01701  274 YCRGIDDRPVTGEKERKSVSAEINYG--IRFTNVDDVEQFLQRLSEELSKRL----EESNVTGRQITLKLMK 339
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
 5-337 6.20e-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: 104.09  E-value: 6.20e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   5 DAKKLCPDLLLAQvresrGKaNLTKYREASVEVMEIMSRFA---VIERASIDEAYVDLTsavqerlqklqgqpisadllp 81
Cdd:cd01703   53 DAKEICPDLVLVN-----GE-DLTPFRDMSKKVYRLLRSYSwndRVERLGFDENFMDVT--------------------- 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  82 styieglpqgpttaeetvqkegmrkqglfqwldslqidnltspDLQLTVGAVIVEEMRAAIERETGFQCSAGISHNKVLA 161
Cdd:cd01703  106 -------------------------------------------EMRLLVASHIAYEMRERIENELGLTCCAGIASNKLLA 142

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 162 KLACGLNKPNRQT-LVSHGS--VPQLFSQMPIRKIRSLGGKLgASVIEILGIEYMGELTQFTESQLQSH----------- 227
Cdd:cd01703  143 KLVGSVNKPNQQTtLLPPSCadLMDFMDLHDLRKIPGIGYKT-AAKLEAHGISSVRDLQEFSNRNRQTVgaapsllelll 221

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 228 ----FGEKNGSWLYAMCRGIEHDPVKP-RQLPKTIGCSKNFPgKTALATREQVQWWLLQLAQELEERLTKDRNDNDrvat 302
Cdd:cd01703  222 mvkeFGEGIGQRIWKLLFGRDTSPVKPaSDFPQQISIEDSYK-KCSLEEIREARNKIEELLASLLERMKQDLQEVK---- 296

                        330       340       350
                 ....*....|....*....|....*....|....*
gi 530382162 303 qlVVSIRVQGDKRLSSLRRccALTRYDAHKMSHDA 337
Cdd:cd01703  297 --AGDGRRPHTLRLTLRRY--TSTKKHYNRESKQA 327
PRK03348 PRK03348
DNA polymerase IV; Provisional
 6-293 3.56e-23

DNA polymerase IV; Provisional


Pssm-ID: 235118 [Multi-domain]  Cd Length: 454  Bit Score: 103.09  E-value: 3.56e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   6 AKKLCPdlLLAQVRESRGKAnltkYREASVEVMEIMSRFA-VIERASIDEAYVDltsavqerlqklqgqpisadllpsty 84
Cdd:PRK03348  64 ARRLVG--NGAVVLPPRFVV----YRAASRRVFDTLRELSpVVEQLSFDEAFVE-------------------------- 111

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  85 ieglPQG--PTTAEETVQkegmrkqglfqwldslqidnltspdlqltvgavIVEEMRAAIERETGFQCSAGISHNKVLAK 162
Cdd:PRK03348 112 ----PAElaGASAEEVEA---------------------------------FAERLRARVREETGLPASVGAGSGKQIAK 154

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 163 LACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLG----GKLgasviEILGIEYMGELTQFTESQLQSHFGEKNGSWLYA 238
Cdd:PRK03348 155 IASGLAKPDGIRVVPPGEERELLAPLPVRRLWGIGpvteEKL-----HRLGIETIGDLAALSEAEVANLLGATVGPALHR 229

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 530382162 239 MCRGIEHDPVKPRQLPKTIGCSKNFPgkTALATREQVQWWLLQLAQELEERLTKD 293
Cdd:PRK03348 230 LARGIDDRPVAERAEAKQISAESTFA--VDLTTRAQLREAIERIAEHAHRRLLKD 282
PRK01810 PRK01810
DNA polymerase IV; Validated
 6-311 8.77e-22

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 98.18  E-value: 8.77e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   6 AKKLCPDLLLAqvresrgKANLTKYREASVEVMEIMSRFA-VIERASIDEAYVDLTsavqerlqklqgqpisadllpsty 84
Cdd:PRK01810  66 AKRLCPQLIVR-------RPNFDRYREASRQMFQILSEFTpLVQPVSIDEGYLDIT------------------------ 114

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  85 ieglpqgPTTAEETVqkegmrkqglfqwldslqidnltspdlqltvgAVIVEEMRAAIERETGFQCSAGISHNKVLAKLA 164
Cdd:PRK01810 115 -------DCYALGSP--------------------------------LEIAKMIQQRLLTELQLPCSIGIAPNKFLAKMA 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 165 CGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLgASVIEILGIEYMGELTQFTESQLQSHFGeKNGSWLYAMCRGIE 244
Cdd:PRK01810 156 SDMKKPLGITVLRKRDVPEMLWPLPVGEMHGIGEKT-AEKLKDIGIQTIGDLAKADEHILRAKLG-INGVRLQRRANGID 233

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 245 HDPVKPRQLP--KTIGCSKNFPGKTalaTREQVQWWLL-QLAQELEERLTKDRndndrvatqlVVSIRVQ 311
Cdd:PRK01810 234 DRPVDPEAIYqfKSVGNSTTLSHDM---DEEKELLDVLrRLSKSVSKRLQKKT----------VVSYNVQ 290
PRK14133 PRK14133
DNA polymerase IV; Provisional
 6-294 6.03e-21

DNA polymerase IV; Provisional


Pssm-ID: 184529 [Multi-domain]  Cd Length: 347  Bit Score: 94.78  E-value: 6.03e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   6 AKKLCPDLLLAQVRESRgkanltkYREASVEVMEIMSRFA-VIERASIDEAYVDLTSavqerlqklqgqpisadllpsty 84
Cdd:PRK14133  62 AKKRCPHGIFLPVRHER-------YKEVSKNIFKILYEVTpIVEPVSIDEAYLDITN----------------------- 111

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  85 ieglpqgpttaeetVQKEGMRkqglfqwldslqidnltspdlqltvgavIVEEMRAAIERETGFQCSAGISHNKVLAKLA 164
Cdd:PRK14133 112 --------------IKEEPIK----------------------------IAKYIKKKVKKETGLTLSVGISYNKFLAKLA 149

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 165 CGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASVIEIlGIEYMGELTQFTESQLQSHFGeKNGSWLYAMCRGIE 244
Cdd:PRK14133 150 SDWNKPDGIKIITEDMIPDILKPLPISKVHGIGKKSVEKLNNI-GIYTIEDLLKLSREFLIEYFG-KFGVEIYERIRGID 227

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|
gi 530382162 245 HDPVKPRQLPKTIGCSKNFPGKTalATREQVQWWLLQLAQELEERLTKDR 294
Cdd:PRK14133 228 YREVEVSRERKSIGKETTLKKDT--KDKEELKKYLKDFSNIISEELKKRN 275
PRK03103 PRK03103
DNA polymerase IV; Reviewed
 6-258 1.53e-20

DNA polymerase IV; Reviewed


Pssm-ID: 235104 [Multi-domain]  Cd Length: 409  Bit Score: 94.30  E-value: 1.53e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   6 AKKLCPDLLLAQVRESRgkanltkYREASVEVMEIMSRFA-VIERASIDEAYVDLTSAvqerlQKLQGQPISadllpsty 84
Cdd:PRK03103  64 AQQKCPDLVVVKPRMQR-------YIDVSLQITRILEDFTdLVEPFSIDEQFLDVTGS-----QKLFGSPLE-------- 123

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  85 ieglpqgpttaeetvqkegmrkqglfqwldslqidnltspdlqltvgavIVEEMRAAIERETGFQCSAGISHNKVLAKLA 164
Cdd:PRK03103 124 -------------------------------------------------IAQKIQQRIMRETGVYARVGIGPNKLLAKMA 154

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 165 CGL---NKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASvIEILGIEYMGELTQFTESQLQSHFGeKNGSWLYAMCR 241
Cdd:PRK03103 155 CDNfakKNPDGLFTLDKEDVPADLWPLPVRKLFGVGSRMEKH-LRRMGIRTIGQLANTPLERLKKRWG-INGEVLWRTAN 232

                        250
                 ....*....|....*....
gi 530382162 242 GIEHDPVKPRQLP--KTIG 258
Cdd:PRK03103 233 GIDYSPVTPHSLDrqKAIG 251
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 1-165 7.93e-20

impB/mucB/samB family; These proteins are involved in UV protection (Swiss).


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 86.47  E-value: 7.93e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162    1 MWADDAKKLCPDLLLAqvresrgKANLTKYREASVEVMEIMSRFA--VIERASIDEAYVDLTSavqerLQKLQGQPISad 78
Cdd:pfam00817  50 MPVFEAKKLCPNLIVV-------PPDLELYRRASRKIFEILRRFStpKVEQASIDEAFLDLTG-----LEKLFGAEEA-- 115

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   79 llpstyieglpqgpttaeetvqkegmrkqglfqwldslqidnltspdlqltvgavIVEEMRAAIERETGFQCSAGISHNK 158
Cdd:pfam00817 116 -------------------------------------------------------LAKRLRREIAEETGLTCSIGIAPNK 140


                  ....*..
gi 530382162  159 VLAKLAC 165
Cdd:pfam00817 141 LLAKLAS 147
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
 5-309 9.49e-20

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: 91.07  E-value: 9.49e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   5 DAKKLCPDLLLAqVRESrgkaNLTKYREASVEVMEIMSRFAV-IERASIDEAYVDLTsavqerlqklqgqpisadllpst 83
Cdd:cd01700   55 KVPDLLERHGVA-VFSS----NYALYGDMSRRIMSILERFSPdVEVYSIDESFLDLT----------------------- 106

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  84 yieglpqgpttaeetvqkegmrkqglfqwlDSLQIDNLTSpdlqltvgavIVEEMRAAIERETGFQCSAGISHNKVLAKL 163
Cdd:cd01700  107 ------------------------------GSLRFGDLEE----------LARKIRRRILQETGIPVTVGIGPTKTLAKL 146

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 164 ACGLNKPNRQT-----LVSHGSVPQLFSQMPIRKI----RSLGGKLGAsvieiLGIEYMGELTQFTESQLQSHFGeKNGS 234
Cdd:cd01700  147 ANDLAKKKNPYggvvdLTDEEVRDKLLKILPVGDVwgigRRTAKKLNA-----MGIHTAGDLAQADPDLLRKKFG-VVGE 220

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 530382162 235 WLYAMCRGI---EHDPVKPRQlpKTIGCSKNFPGK-TALATREQVqwwLLQLAQELEERLtkdRNDNdRVATQLVVSIR 309
Cdd:cd01700  221 RLVRELNGIdclPLEEYPPPK--KSIGSSRSFGRDvTDLDELKQA---LAEYAERAAEKL---RRQK-SVARTISVFIG 290
PRK03352 PRK03352
DNA polymerase IV; Validated
 136-309 2.49e-16

DNA polymerase IV; Validated


Pssm-ID: 179564 [Multi-domain]  Cd Length: 346  Bit Score: 80.84  E-value: 2.49e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 136 EEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASVIEiLGIEYMGE 215
Cdd:PRK03352 125 EEIRAAVLERTGLSCSVGIGDNKLRAKIATGFAKPAGVFRLTDANWMAVMGDRPTDALWGVGPKTAKRLAA-LGITTVAD 203

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 216 LTQFTESQLQSHFGEKNGSWLYAMCRGIEHDPV--KPRQlPKTIGCSKNFPgkTALATREQVQWWLLQLAQeleeRLTKD 293
Cdd:PRK03352 204 LAAADPAELAATFGPTTGPWLLLLARGGGDTEVsaEPWV-PRSRSREVTFP--QDLTDRAEVESAVRELAR----RVLDE 276

                        170
                 ....*....|....*.
gi 530382162 294 RNDNDRVATQLVVSIR 309
Cdd:PRK03352 277 VVAEGRPVTRVAVKVR 292
PRK02794 PRK02794
DNA polymerase IV; Provisional
 6-257 4.89e-16

DNA polymerase IV; Provisional


Pssm-ID: 179473 [Multi-domain]  Cd Length: 419  Bit Score: 80.75  E-value: 4.89e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   6 AKKLCPDlllAQVResrgKANLTKYREASVEVMEIMSRFA-VIERASIDEAYVDLTSAvqERLQklqgqpisadllpsty 84
Cdd:PRK02794  94 ALKLCPD---AVVI----KPDMEKYVRVGREVRAMMQALTpLVEPLSIDEAFLDLSGT--ERLH---------------- 148

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  85 ieglpqgpttaeetvqkeGMrkqglfqwldslqidnltSPdlqltvgAVIVEEMRAAIERETGFQCSAGISHNKVLAKLA 164
Cdd:PRK02794 149 ------------------GA------------------PP-------AVVLARFARRVEREIGITVSVGLSYNKFLAKIA 185

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 165 CGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASvIEILGIEYMGELTQFTESQLQSHFGEkNGSWLYAMCRGIE 244
Cdd:PRK02794 186 SDLDKPRGFSVIGRAEALAFLAPKPVGIIWGVGPATAAR-LARDGIRTIGDLQRADEADLMRRFGS-MGLRLWRLARGID 263

                        250
                 ....*....|...
gi 530382162 245 HDPVKPRQLPKTI 257
Cdd:PRK02794 264 DRKVSPDREAKSV 276
PRK01216 PRK01216
DNA polymerase IV; Validated
 6-251 1.62e-12

DNA polymerase IV; Validated


Pssm-ID: 179251 [Multi-domain]  Cd Length: 351  Bit Score: 69.43  E-value: 1.62e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   6 AKKLCPDLLLAQVRESrgkanltKYREASVEVMEIMSRFA-VIERASIDEAYVDLTSAVQErlqklqgqpisadllpstY 84
Cdd:PRK01216  64 AKKILPNAVYLPMRKE-------VYQQVSNRIMKLLREYSeKIEIASIDEAYLDISDKVKN------------------Y 118

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  85 IEGLPQGPTTAEETVQKEGMRkqglfqwldslqidnltspdlqLTVGaviveemraaieretgfqcsagISHNKVLAKLA 164
Cdd:PRK01216 119 QDAYNLGLEIKNKILEKEKIT----------------------VTVG----------------------ISKNKVFAKIA 154

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 165 CGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLgGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWLYAMCRGIE 244
Cdd:PRK01216 155 ADMAKPNGIKVIDDEEVKRFINELDIADIPGI-GDITAEKLKKLGVNKLVDTLRIEFDELKGIIGEAKAKYLFSLARNEY 233


                 ....*..
gi 530382162 245 HDPVKPR 251
Cdd:PRK01216 234 NEPVRAR 240
zf_UBZ pfam18439
Ubiquitin-Binding Zinc Finger; This is ubiquitin-binding zinc finger (UBZ) domain found in DNA ...
 569-599 1.56e-11

Ubiquitin-Binding Zinc Finger; This is ubiquitin-binding zinc finger (UBZ) domain found in DNA polymerase eta (EC:2.7.7.7). It is important in the recruitment of the polymerase to the stalled replication machinery in translesion synthesis. The UBZ domain adopts a classical C2H2 zinc-finger structure characterized by a beta-beta-alpha fold.


Pssm-ID: 465769  Cd Length: 32  Bit Score: 59.06  E-value: 1.56e-11
                          10        20        30
                  ....*....|....*....|....*....|.
gi 530382162  569 DQVPCEKCGSLVPVWDMPEHMDYHFALELQK 599
Cdd:pfam18439   1 DTYVCPRCGKEIPESELPEHEDWHFAKDLQR 31
PRK03858 PRK03858
DNA polymerase IV; Validated
 6-309 4.04e-11

DNA polymerase IV; Validated


Pssm-ID: 179663 [Multi-domain]  Cd Length: 396  Bit Score: 65.39  E-value: 4.04e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162   6 AKKLCPDlllAQVRESRGKAnltkYREASVEVMEIMSRFA-VIERASIDEAYVDLTSavqerLQKLQGQPISadllpsty 84
Cdd:PRK03858  59 ARRLCPQ---AVVVPPRMSA----YSRASKAVFEVFRDTTpLVEGLSIDEAFLDVGG-----LRRISGTPVQ-------- 118

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  85 ieglpqgpttaeetvqkegmrkqglfqwldslqidnltspdlqltvgavIVEEMRAAIERETGFQCSAGISHNKVLAKLA 164
Cdd:PRK03858 119 -------------------------------------------------IAARLRRRVREEVGLPITVGVARTKFLAKVA 149

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 165 CGLNKPNRQTLVSHGSVPQLFSQMPIRKIRSLGGKLGASVIEIlGIEYMGELTQFTESQLQSHFGEKNGSWLYAMCRGIE 244
Cdd:PRK03858 150 SQVAKPDGLLVVPPDRELAFLHPLPVRRLWGVGPVTAAKLRAH-GITTVGDVAELPESALVSLLGPAAGRHLHALAHNRD 228

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 530382162 245 HDPVKPRQLPKTIGcsknfpGKTAL----ATREQVQWWLLQLAqeleERLTKDRNDNDRVATQLVVSIR 309
Cdd:PRK03858 229 PRRVETGRRRRSVG------AQRALgrgpNSPAEVDAVVVALV----DRVARRMRAAGRTGRTVVLRLR 287
PolY_like cd03468
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ...
 93-333 4.61e-06

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: 49.30  E-value: 4.61e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162  93 TTAEETVQKEGMRKQGLFQWLD-SLQIDNLTSPD-LQLTVGAV---------IVEEMRAAIEReTGFQCSAGISHNKVLA 161
Cdd:cd03468   65 QVVEYDPEADARALQELALWLLrFTPLVALDGPDgLLLDVTGClhlfggedaLAASLRAALAT-LGLSARAGIADTPGAA 143

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 162 KLACGLNKP---NRQTlvSHGSVPQLFSQMPIRKIRSlgGKLGASVIEILGIEYMGELTQFTESQLQSHFGeKNGSWLYA 238
Cdd:cd03468  144 WLLARAGGGrgvLRRE--ALAAALVLLAPLPVAALRL--PPETVELLARLGLRTLGDLAALPRAELARRFG-LALLLRLD 218

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 239 MCRGIEHDPVKPRQLPktigcsKNFPGKTALATREQVQWWLLQLAQELEERLTKDRNDNDRVATQLVVSIRvQGDKRLSS 318
Cdd:cd03468  219 QAYGRDPEPLLFSPPP------PAFDFRLELQLEEPIARGLLFPLRRLLEQLCAFLALRGLGARRLSLTLF-REDGRVTR 291

                        250
                 ....*....|....*
gi 530382162 319 LRRCCALTRYDAHKM 333
Cdd:cd03468  292 VLVGLARPSRDDLPL 306
IMS_C pfam11799
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
 254-328 4.68e-06

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: 45.63  E-value: 4.68e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 530382162  254 PKTIGCSKNFPgkTALATREQVQWWLLQLAQELEERLTKDRndndRVATQLVVSIRvqgDKRLSSLRRCCALTRY 328
Cdd:pfam11799   1 RKSIGAERTFG--RDLTDLEELREALLELAEELAERLRRQG----LVARTVTVKIR---YSDFRTITRSVTLPSP 66
PTZ00205 PTZ00205
DNA polymerase kappa; Provisional
 134-309 4.75e-04

DNA polymerase kappa; Provisional


Pssm-ID: 140232 [Multi-domain]  Cd Length: 571  Bit Score: 43.08  E-value: 4.75e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 134 IVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQ---TLVSHGSVPQLFSQMPIRKIRSLgGKLGASVIEILGI 210
Cdd:PTZ00205 252 VASELRVRVFGETKLTASAGIGPTAALAKIASNINKPNGQhdlNLHTRGDVMTYVRDLGLRSVPGV-GKVTEALLKGLGI 330

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 530382162 211 EYMGELTQfTESQLQSHFGEKNGSWLYAMCRGIEHDPVKPRQLP------------KTIGCSKNFpgkTALATREQVQWW 278
Cdd:PTZ00205 331 TTLSDIYN-RRVELCYILHNNLFRFLLGASIGIMQWPDAATAANtencegatggqrKAISSERSF---TTPRTKEGLQEM 406

                        170       180       190
                 ....*....|....*....|....*....|.
gi 530382162 279 LLQLAQELEERLTKdrndNDRVATQLVVSIR 309
Cdd:PTZ00205 407 VDTVFNGAYEEMRK----SELMCRQISLTIR 433
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

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