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Conserved domains on  [gi|56160406|gb|AAV80817|]
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polymerase kappa isoform 1 [Mus musculus]

Protein Classification

Y-family DNA polymerase( domain architecture ID 10132427)

Y-family DNA polymerase similar to DNA polymerase IV which is a poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis

CATH:  3.30.1490.100|3.30.70.270|2.30.40.20|1.10.150.810
EC:  2.7.7.7
Gene Ontology:  GO:0006281|GO:0003684|GO:0006260|GO:0046872|GO:0003887
PubMed:  15680965|24716551|20123134
SCOP:  4000563|4000558

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 103-494 1.52e-147

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: 426.55  E-value: 1.52e-147
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 103 VHVDMDAFYAAVEMRDNPELKDKPIAVGSMS---MLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKE 179
Cdd:cd03586   1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSSdrgVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 180 VKEILAEYDPNFMAMSLDEAYLNITqhlqerqdwpedkrryfikmgnylkidtprqeanelteyersispllfedsppdl 259
Cdd:cd03586  81 IMEILREYTPLVEPLSIDEAYLDVT------------------------------------------------------- 105

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 260 qpqgspfqlnseeqnnpqiaqNSVVFGTSAEEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPSrs 339
Cdd:cd03586 106 ---------------------DYVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVIPPE-- 162

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 340 AVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQQRALLSLLFSETSWHYFLHIALGLGSTDLARDGERKSMSVER 419
Cdd:cd03586 163 DVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEPDRERKSIGVER 242

                       330       340       350       360       370       380       390
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 56160406 420 TFSE-ISKTEEQYSLCQELCAELAHDLQKEGLKGRTVTIKLKNVNFEVKTRASTVPAAISTAEEIFAIAKELLRTE 494
Cdd:cd03586 243 TFSEdLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLEEL 318
 
Name Accession Description Interval E-value
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 103-494 1.52e-147

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: 426.55  E-value: 1.52e-147
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 103 VHVDMDAFYAAVEMRDNPELKDKPIAVGSMS---MLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKE 179
Cdd:cd03586   1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSSdrgVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 180 VKEILAEYDPNFMAMSLDEAYLNITqhlqerqdwpedkrryfikmgnylkidtprqeanelteyersispllfedsppdl 259
Cdd:cd03586  81 IMEILREYTPLVEPLSIDEAYLDVT------------------------------------------------------- 105

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 260 qpqgspfqlnseeqnnpqiaqNSVVFGTSAEEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPSrs 339
Cdd:cd03586 106 ---------------------DYVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVIPPE-- 162

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 340 AVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQQRALLSLLFSETSWHYFLHIALGLGSTDLARDGERKSMSVER 419
Cdd:cd03586 163 DVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEPDRERKSIGVER 242

                       330       340       350       360       370       380       390
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 56160406 420 TFSE-ISKTEEQYSLCQELCAELAHDLQKEGLKGRTVTIKLKNVNFEVKTRASTVPAAISTAEEIFAIAKELLRTE 494
Cdd:cd03586 243 TFSEdLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLEEL 318
PRK02406 PRK02406
DNA polymerase IV; Validated
 107-492 1.41e-103

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 314.75  E-value: 1.41e-103
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  107 MDAFYAAVEMRDNPELKDKPIAVGS----MSMLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKEVKE 182
Cdd:PRK02406   1 MDCFYAAVEMRDNPELRGKPVAVGGspgrRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIRE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  183 ILAEYDPNFMAMSLDEAYLNITqhlqerqdwpedkrryfikmgnylkidtprqeanelteyersispllfeDSPpdlQPQ 262
Cdd:PRK02406  81 IFRRYTDLIEPLSLDEAYLDVT-------------------------------------------------DNK---LCI 108

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  263 GSpfqlnseeqnnpqiaqnsvvfgtsAEEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPSRsaVM 342
Cdd:PRK02406 109 GS------------------------ATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPEE--VD 162

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  343 DFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELyQQRALLSLLfsetswHYF------LHialglgstDLAR-------- 408
Cdd:PRK02406 163 AFLATLPVEKIPGVGKVTAEKLHALGIYTCADL-QKYDLAELI------RHFgkfgrrLY--------ERARgiderpvk 227

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  409 -DGERKSMSVERTFSEISKTEEQyslCQE----LCAELAHDLQKEG--LKGRTVTIKLKNVNFEVKTRaSTVPAAISTAE 481
Cdd:PRK02406 228 pDRERKSVGVERTFAEDLYDLEA---CLAelprLAEKLERRLERAKpdKRIKTVGVKLKFADFQQTTK-EHTADPLDKAD 303

                        410
                 ....*....|.
gi 56160406  482 EIFAIAKELLR 492
Cdd:PRK02406 304 LIELLAQALLR 314
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 101-492 2.47e-100

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 305.92  E-value: 2.47e-100
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 101 TIVHVDMDAFYAAVEMRDNPELKDKPIAVGSMSM---LATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVS 177
Cdd:COG0389   2 RILHVDMDAFYASVEQRDRPELRGKPVAVGGDNNrgvVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRDVS 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 178 KEVKEILAEYDPNFMAMSLDEAYLNITqhlqerqdwpeDKRRYFikmgnylkidtprqeanelteyersispllfedspp 257
Cdd:COG0389  82 RRVMAILERYTPLVEPLSIDEAFLDVT-----------GSARLF------------------------------------ 114

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 258 dlqpqgspfqlnseeqnnpqiaqnsvvfgTSAEEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPS 337
Cdd:COG0389 115 -----------------------------GSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLTVIPPG 165

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 338 RsaVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQQ-RALLSLLFSEtSWHYFLHIALGLGSTDLARDGERKSMS 416
Cdd:COG0389 166 E--VAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALpRAELRRRFGK-VGERLYRLARGIDPRPVEPRRPRKSIG 242

                       330       340       350       360       370       380       390
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 56160406 417 VERTFSE-ISKTEEQYSLCQELCAELAHDLQKEGLKGRTVTIKLKNVNFEVKTRASTVPAAISTAEEIFAIAKELLR 492
Cdd:COG0389 243 VERTFGEdLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDFRTTTRSRTLPEPTDDTAELLRAARELLE 319
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 105-324 1.09e-46

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 159.66  E-value: 1.09e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406   105 VDMDAFYAAVEMRDNPELKDKPIAVGS---MSMLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKEVK 181
Cdd:pfam00817   1 IDMDAFFASVELLRDPELKGKPVAVGGgngRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKIF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406   182 EILAEY-DPNFMAMSLDEAYLnitqhlqerqdwpedkrryfikmgnylkidtprqeanELTEYERsisplLFEDSppdlq 260
Cdd:pfam00817  81 EILRRFsTPKVEQASIDEAFL-------------------------------------DLTGLEK-----LFGAE----- 113

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 56160406   261 pqgspfqlnseeqnnpqiaqnsvvfgtsaEEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSD 324
Cdd:pfam00817 114 -----------------------------EALAKRLRREIAEETGLTCSIGIAPNKLLAKLASD 148
 
Name Accession Description Interval E-value
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
 103-494 1.52e-147

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: 426.55  E-value: 1.52e-147
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 103 VHVDMDAFYAAVEMRDNPELKDKPIAVGSMS---MLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKE 179
Cdd:cd03586   1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSSdrgVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 180 VKEILAEYDPNFMAMSLDEAYLNITqhlqerqdwpedkrryfikmgnylkidtprqeanelteyersispllfedsppdl 259
Cdd:cd03586  81 IMEILREYTPLVEPLSIDEAYLDVT------------------------------------------------------- 105

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 260 qpqgspfqlnseeqnnpqiaqNSVVFGTSAEEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPSrs 339
Cdd:cd03586 106 ---------------------DYVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVIPPE-- 162

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 340 AVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQQRALLSLLFSETSWHYFLHIALGLGSTDLARDGERKSMSVER 419
Cdd:cd03586 163 DVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEPDRERKSIGVER 242

                       330       340       350       360       370       380       390
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 56160406 420 TFSE-ISKTEEQYSLCQELCAELAHDLQKEGLKGRTVTIKLKNVNFEVKTRASTVPAAISTAEEIFAIAKELLRTE 494
Cdd:cd03586 243 TFSEdLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKYADFSTRTRSRTLPEPTDDAEDIYELALELLEEL 318
PRK02406 PRK02406
DNA polymerase IV; Validated
 107-492 1.41e-103

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 314.75  E-value: 1.41e-103
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  107 MDAFYAAVEMRDNPELKDKPIAVGS----MSMLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKEVKE 182
Cdd:PRK02406   1 MDCFYAAVEMRDNPELRGKPVAVGGspgrRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIRE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  183 ILAEYDPNFMAMSLDEAYLNITqhlqerqdwpedkrryfikmgnylkidtprqeanelteyersispllfeDSPpdlQPQ 262
Cdd:PRK02406  81 IFRRYTDLIEPLSLDEAYLDVT-------------------------------------------------DNK---LCI 108

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  263 GSpfqlnseeqnnpqiaqnsvvfgtsAEEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPSRsaVM 342
Cdd:PRK02406 109 GS------------------------ATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPEE--VD 162

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  343 DFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELyQQRALLSLLfsetswHYF------LHialglgstDLAR-------- 408
Cdd:PRK02406 163 AFLATLPVEKIPGVGKVTAEKLHALGIYTCADL-QKYDLAELI------RHFgkfgrrLY--------ERARgiderpvk 227

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  409 -DGERKSMSVERTFSEISKTEEQyslCQE----LCAELAHDLQKEG--LKGRTVTIKLKNVNFEVKTRaSTVPAAISTAE 481
Cdd:PRK02406 228 pDRERKSVGVERTFAEDLYDLEA---CLAelprLAEKLERRLERAKpdKRIKTVGVKLKFADFQQTTK-EHTADPLDKAD 303

                        410
                 ....*....|.
gi 56160406  482 EIFAIAKELLR 492
Cdd:PRK02406 304 LIELLAQALLR 314
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 101-492 2.47e-100

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 305.92  E-value: 2.47e-100
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 101 TIVHVDMDAFYAAVEMRDNPELKDKPIAVGSMSM---LATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVS 177
Cdd:COG0389   2 RILHVDMDAFYASVEQRDRPELRGKPVAVGGDNNrgvVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRDVS 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 178 KEVKEILAEYDPNFMAMSLDEAYLNITqhlqerqdwpeDKRRYFikmgnylkidtprqeanelteyersispllfedspp 257
Cdd:COG0389  82 RRVMAILERYTPLVEPLSIDEAFLDVT-----------GSARLF------------------------------------ 114

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 258 dlqpqgspfqlnseeqnnpqiaqnsvvfgTSAEEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPS 337
Cdd:COG0389 115 -----------------------------GSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGLTVIPPG 165

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 338 RsaVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQQ-RALLSLLFSEtSWHYFLHIALGLGSTDLARDGERKSMS 416
Cdd:COG0389 166 E--VAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALpRAELRRRFGK-VGERLYRLARGIDPRPVEPRRPRKSIG 242

                       330       340       350       360       370       380       390
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 56160406 417 VERTFSE-ISKTEEQYSLCQELCAELAHDLQKEGLKGRTVTIKLKNVNFEVKTRASTVPAAISTAEEIFAIAKELLR 492
Cdd:COG0389 243 VERTFGEdLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRTSDFRTTTRSRTLPEPTDDTAELLRAARELLE 319
PTZ00205 PTZ00205
DNA polymerase kappa; Provisional
 16-460 3.04e-85

DNA polymerase kappa; Provisional


Pssm-ID: 140232 [Multi-domain]  Cd Length: 571  Bit Score: 274.59  E-value: 3.04e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406   16 LRMGLNDNKAGMEGLDKEKINKIIMEATKGSRFYGNELKKEKQVNQRIENMMQQKAQIT--------SQQLRKAQLQVDK 87
Cdd:PTZ00205  42 FQLTLDCNKAGMGNVDKERVEAIIRNVSEGSSFLMNEQRLAEGREKQLQELKRKSSLFTqllggernAAQRKQWELKVSK 121

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406   88 FAMELERNRNLNnTIVHVDMDAFYAAVEMRDNPELKDKPIAVGSMSMLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVP 167
Cdd:PTZ00205 122 IEQELEATRRLG-TYIHLDMDMFYAAVEIKKHPEYAAIPLAIGTMTMLQTANYVARGRGIRQGMPGFLALKICPNLLILP 200

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  168 PNFDKYRAVSKEVKEILAEYDPNFMAMSLDEAYLNITQHLQErqdwpedkrryfikmgnylkidtprqeanelteyersi 247
Cdd:PTZ00205 201 PDFDAYNEESNTVRRIVAEYDPNYISFGLDELTLEVSAYIER-------------------------------------- 242

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  248 spllFEdsppdlqpqgspfqlnseeqnnpqiaqnsvvfGT-SAEEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKN 326
Cdd:PTZ00205 243 ----FE--------------------------------GTkTAEDVASELRVRVFGETKLTASAGIGPTAALAKIASNIN 286

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  327 KPNGQYQI-LPSRSAVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQQRALLSLLFSETSWHYFLHIALGL---- 401
Cdd:PTZ00205 287 KPNGQHDLnLHTRGDVMTYVRDLGLRSVPGVGKVTEALLKGLGITTLSDIYNRRVELCYILHNNLFRFLLGASIGImqwp 366

                        410       420       430       440       450       460
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 56160406  402 --------GSTDLARDGERKSMSVERTFSEISKTEEQYSLCQELCAELAHDLQKEGLKGRTVTIKLK 460
Cdd:PTZ00205 367 daataantENCEGATGGQRKAISSERSFTTPRTKEGLQEMVDTVFNGAYEEMRKSELMCRQISLTIR 433
PRK02794 PRK02794
DNA polymerase IV; Provisional
 101-495 2.06e-66

DNA polymerase IV; Provisional


Pssm-ID: 179473 [Multi-domain]  Cd Length: 419  Bit Score: 220.96  E-value: 2.06e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  101 TIVHVDMDAFYAAVEMRDNPELKDKPIAVG--SMSMLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSK 178
Cdd:PRK02794  37 SIAHIDCDAFYASVEKRDNPELRDKPVIIGggKRGVVSTACYIARIHGVRSAMPMFKALKLCPDAVVIKPDMEKYVRVGR 116

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  179 EVKEILAEYDPNFMAMSLDEAYLnitqhlqerqdwpedkrryfikmgnylkidtprqeanELTEYERsisplLFEDSPpd 258
Cdd:PRK02794 117 EVRAMMQALTPLVEPLSIDEAFL-------------------------------------DLSGTER-----LHGAPP-- 152

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  259 lqpqgspfqlnseeqnnpqiaqnSVVFgtsaeevvkeIRF--RIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGqYQILp 336
Cdd:PRK02794 153 -----------------------AVVL----------ARFarRVEREIGITVSVGLSYNKFLAKIASDLDKPRG-FSVI- 197

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  337 SRSAVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQ--QRALLSLLFSETSWHYflHIALGLGSTDLARDGERKS 414
Cdd:PRK02794 198 GRAEALAFLAPKPVGIIWGVGPATAARLARDGIRTIGDLQRadEADLMRRFGSMGLRLW--RLARGIDDRKVSPDREAKS 275

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  415 MSVERTFSE-ISKTEEQYSLCQELCAELAHDLQKEGLKGRTVTIKLKNVNFEVKTRASTVPAAISTAEEIFAIAKELLRT 493
Cdd:PRK02794 276 VSAETTFETdLSDFEDLEPILWRLSEKVSRRLKAAGLAGRTVTLKLKTADFRLRTRRRTLEDPTQLADRIFRTARELLEK 355


                 ..
gi 56160406  494 EV 495
Cdd:PRK02794 356 ET 357
PRK14133 PRK14133
DNA polymerase IV; Provisional
 98-521 2.90e-66

DNA polymerase IV; Provisional


Pssm-ID: 184529 [Multi-domain]  Cd Length: 347  Bit Score: 218.43  E-value: 2.90e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406   98 LNNTIVHVDMDAFYAAVEMRDNPELKDKPIAVGSMS---MLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYR 174
Cdd:PRK14133   1 MDRVIIHVDMDAFFASVEQMDNPKLKGKPVIVGGISergVVSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVRHERYK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  175 AVSKEVKEILAEYDPNFMAMSLDEAYLNITQhlqerqdwpedkrryfikmgnylkIDtprqeanelteyersispllfed 254
Cdd:PRK14133  81 EVSKNIFKILYEVTPIVEPVSIDEAYLDITN------------------------IK----------------------- 113

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  255 sppdlqpqgspfqlnseeqNNPqiaqnsvvfgtsaEEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQI 334
Cdd:PRK14133 114 -------------------EEP-------------IKIAKYIKKKVKKETGLTLSVGISYNKFLAKLASDWNKPDGIKII 161

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  335 lpSRSAVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQ-QRALLSLLFSETSWHYFLHIAlGLGSTDLARDGERK 413
Cdd:PRK14133 162 --TEDMIPDILKPLPISKVHGIGKKSVEKLNNIGIYTIEDLLKlSREFLIEYFGKFGVEIYERIR-GIDYREVEVSRERK 238

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  414 SMSVERTFS-EISKTEEQYSLCQELCAELAHDLQKEGLKGRTVTIKLKNVNFEVKTRASTVPAAISTAEEIFAIAKELLR 492
Cdd:PRK14133 239 SIGKETTLKkDTKDKEELKKYLKDFSNIISEELKKRNLYGKTVTVKIKTSDFQTHTKSKTLNDYIRDKEEIYNVACEILE 318

                        410       420
                 ....*....|....*....|....*....
gi 56160406  493 tEVNVSEcllfPVKMTGNTNKGASLVSYK 521
Cdd:PRK14133 319 -HINIKE----PIRLIGLSVSNLSENKIE 342
PRK03348 PRK03348
DNA polymerase IV; Provisional
 101-492 2.33e-60

DNA polymerase IV; Provisional


Pssm-ID: 235118 [Multi-domain]  Cd Length: 454  Bit Score: 205.94  E-value: 2.33e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  101 TIVHVDMDAFYAAVEMRDNPELKDKPIAVGSMS---MLATSNYHARRFGVRAAMPGFIAKRLCPQL-IIVPPNFDKYRAV 176
Cdd:PRK03348   6 WVLHLDMDAFFASVEQLTRPTLRGRPVLVGGLGgrgVVAGASYEARVFGARSAMPMHQARRLVGNGaVVLPPRFVVYRAA 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  177 SKEVKEILAEYDPNFMAMSLDEAYLNitqhlqerqdwpedkrryfikmgnylkidtprqeanelteyersispllfedsP 256
Cdd:PRK03348  86 SRRVFDTLRELSPVVEQLSFDEAFVE-----------------------------------------------------P 112

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  257 PDLQpqgspfqlnseeqnnpqiaqnsvvfGTSAEEVVK---EIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQ 333
Cdd:PRK03348 113 AELA-------------------------GASAEEVEAfaeRLRARVREETGLPASVGAGSGKQIAKIASGLAKPDGIRV 167

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  334 ILPSRSavMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQ--QRALLSLLfSETSWHYFLHIALGLGSTDLARDGE 411
Cdd:PRK03348 168 VPPGEE--RELLAPLPVRRLWGIGPVTEEKLHRLGIETIGDLAAlsEAEVANLL-GATVGPALHRLARGIDDRPVAERAE 244

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  412 RKSMSVERTFSEISKTEEQYSLCQELCAELAHD-LQKEGLKGRTVTIKLKNVNFEVKTRASTVPAAISTAEEIFAIAKEL 490
Cdd:PRK03348 245 AKQISAESTFAVDLTTRAQLREAIERIAEHAHRrLLKDGRGARTVTVKLRKSDFSTLTRSATLPYATDDAAVLAATARRL 324


                 ..
gi 56160406  491 LR 492
Cdd:PRK03348 325 LL 326
PRK01810 PRK01810
DNA polymerase IV; Validated
 102-511 6.07e-52

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 182.15  E-value: 6.07e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  102 IVHVDMDAFYAAVEMRDNPELKDKPIAV-GSMS----MLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAV 176
Cdd:PRK01810   7 IFHVDMNSFFASVEIAYDPSLQGKPLAVaGNEKerkgIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRRPNFDRYREA 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  177 SKEVKEILAEYDPNFMAMSLDEAYLNITqhlqerqdwpedkrryfikmgnylkiDTPrqeanelteyeRSISPLlfedsp 256
Cdd:PRK01810  87 SRQMFQILSEFTPLVQPVSIDEGYLDIT--------------------------DCY-----------ALGSPL------ 123

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  257 pdlqpqgspfqlnseeqnnpqiaqnsvvfgtsaeEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGqYQILP 336
Cdd:PRK01810 124 ----------------------------------EIAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKPLG-ITVLR 168

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  337 SRSaVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQ-QRALLSLLFSETSWHyfLH-IALGL--GSTDLARDGER 412
Cdd:PRK01810 169 KRD-VPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKaDEHILRAKLGINGVR--LQrRANGIddRPVDPEAIYQF 245

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  413 KSMSVERTFSEISKTE-EQYSLCQELCAELAHDLQKEGLKGRTVTIKLKNVNFEVKTRASTVPAAISTAEEIFAIAKELL 491
Cdd:PRK01810 246 KSVGNSTTLSHDMDEEkELLDVLRRLSKSVSKRLQKKTVVSYNVQIMIRYHDRRTITRSKTLKNPIWEKRDIFQAASRLF 325

                        410       420
                 ....*....|....*....|
gi 56160406  492 RTEVNVSecllfPVKMTGNT 511
Cdd:PRK01810 326 KQHWNGD-----PVRLLGVT 340
PRK03858 PRK03858
DNA polymerase IV; Validated
 101-492 1.57e-51

DNA polymerase IV; Validated


Pssm-ID: 179663 [Multi-domain]  Cd Length: 396  Bit Score: 180.57  E-value: 1.57e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  101 TIVHVDMDAFYAAVEMRDNPELKDKPIAVGSMSMLATSnYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKEV 180
Cdd:PRK03858   5 SILHADLDSFYASVEQRDDPALRGRPVIVGGGVVLAAS-YEAKAYGVRTAMGGRQARRLCPQAVVVPPRMSAYSRASKAV 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  181 KEILAEYDPNFMAMSLDEAYLNITqhlqerqdwpeDKRRyfikmgnylkidtprqeanelteyersispllfedsppdlq 260
Cdd:PRK03858  84 FEVFRDTTPLVEGLSIDEAFLDVG-----------GLRR----------------------------------------- 111

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  261 pqgspfqlnseeqnnpqiaqnsvVFGTSAeEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPSRSa 340
Cdd:PRK03858 112 -----------------------ISGTPV-QIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAKPDGLLVVPPDRE- 166

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  341 vMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQ--QRALLSLLFSETSWHyfLHiALGlgstdLARD-------GE 411
Cdd:PRK03858 167 -LAFLHPLPVRRLWGVGPVTAAKLRAHGITTVGDVAElpESALVSLLGPAAGRH--LH-ALA-----HNRDprrvetgRR 237

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  412 RKSMSVERTFSEISKTEEQY--SLCQeLCAELAHDLQKEGLKGRTVTIKLKNVNFEVKTRASTVPAAISTAEEIFAIAKE 489
Cdd:PRK03858 238 RRSVGAQRALGRGPNSPAEVdaVVVA-LVDRVARRMRAAGRTGRTVVLRLRFDDFTRATRSHTLPRPTASTATLLAAARD 316


                 ...
gi 56160406  490 LLR 492
Cdd:PRK03858 317 LVA 319
PolY cd00424
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 103-497 7.79e-51

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: 177.55  E-value: 7.79e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 103 VHVDMDAFYAAVEMRDNPELKDKPIAV----GSMSMLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSK 178
Cdd:cd00424   1 LHIDFDNFFASVEQLARPELKGRPVVVvpfnSDSTCVIACSYEARKYGVKRGMPVREARKMCPNLILVPARLDLYRRLSE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 179 EVKEILAEYDPNFMAMSLDEAYLNITqhlqerqdwpedkrryfikmgnylkidtprqeanelteyersispllfedsppd 258
Cdd:cd00424  81 RLLSELEEVAPLVEVASIDELFLDLT------------------------------------------------------ 106

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 259 lqpqGSPFQLnseeqnnpqiaqnsvvfgTSAEEVVKEIRFRIEQKT-TLTASAGIAPNTMLAKVCSDKNKPNGQYQILPs 337
Cdd:cd00424 107 ----GSARLL------------------GLGSEVALRIKRHIAEQLgGITASIGIASNKLLAKLAAKYAKPDGLTILDP- 163

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 338 rSAVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELY--QQRALLSLLFSETS--WHYFLHialGLGSTDLARDGERK 413
Cdd:cd00424 164 -EDLPGFLSKLPLTDLPGIGAVTAKRLEAVGINPIGDLLaaSPDALLALWGGVSGerLWYALR---GIDDEPLSPPRPRK 239

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 414 SMSVERTFSEISKTEEQ-YSLCQELCAELAHDLQKEGLKGRTVTIKLKNVN------FEVKTRASTVPAAISTaEEIFAI 486
Cdd:cd00424 240 SFSHERVLPRDSRNAEDaRPLLRLLLEKLARRLRRDGRGATRLRLWLRTVDgrwsghADIPSRSAPRPISTED-GELLHA 318

                       410
                ....*....|.
gi 56160406 487 AKELLRTEVNV 497
Cdd:cd00424 319 LDKLWRALLDD 329
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 98-501 9.76e-51

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: 178.66  E-value: 9.76e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  98 LNNTIVHVDMDAFYAAVEMRDNPELKDKPIAV----GSMSMLATSNYHARRFGVRAAMpgFI--AKRLCPQLIIVPPNFD 171
Cdd:cd01701  45 LQRIIMHVDFDCFFVSVSIRNRPDLKGKPVAVchgkGPNSEIASCNYEARSYGIKNGM--WVgqAKKLCPQLVTLPYDFE 122

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 172 KYRAVSKEVKEILAEYDPNFMAMSLDEAYLNITQHLQErqdwpedkrryfikmgnylkidtprqeaneltEYErsispll 251
Cdd:cd01701 123 AYEEVSLTFYEILASYTDNIEAVSCDEALIDITSLLEE--------------------------------TYE------- 163

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 252 fedsppdlqpqgspfqlnseeqnnpqiaqnsvvfgtSAEEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQ 331
Cdd:cd01701 164 ------------------------------------LPEELAEAIRNEIRETTGCSASVGIGPNILLARLATRKAKPDGQ 207

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 332 YQILPsrSAVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQQ----RALLSLLFSETSWHyFLHIALGLGSTDLA 407
Cdd:cd01701 208 YHLSA--EKVEEFLSQLKVGDLPGVGSSLAEKLVKLFGDTCGGLELRsktkEKLQKVLGPKTGEK-LYDYCRGIDDRPVT 284

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 408 RDGERKSMSVERTFSEISKTEEQ-YSLCQELCAELAHDLQKEGLKGRTVTIKLKN------------------VNFevkT 468
Cdd:cd01701 285 GEKERKSVSAEINYGIRFTNVDDvEQFLQRLSEELSKRLEESNVTGRQITLKLMKrapgapieppkymghgicDSF---S 361

                       410       420       430
                ....*....|....*....|....*....|...
gi 56160406 469 RASTVPAAISTAEEIFAIAKELLRTEVNVSECL 501
Cdd:cd01701 362 KSSTLGVATDDSGVIGTEAKKLFRDLSIPPEEL 394
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 105-324 1.09e-46

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 159.66  E-value: 1.09e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406   105 VDMDAFYAAVEMRDNPELKDKPIAVGS---MSMLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKEVK 181
Cdd:pfam00817   1 IDMDAFFASVELLRDPELKGKPVAVGGgngRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKIF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406   182 EILAEY-DPNFMAMSLDEAYLnitqhlqerqdwpedkrryfikmgnylkidtprqeanELTEYERsisplLFEDSppdlq 260
Cdd:pfam00817  81 EILRRFsTPKVEQASIDEAFL-------------------------------------DLTGLEK-----LFGAE----- 113

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 56160406   261 pqgspfqlnseeqnnpqiaqnsvvfgtsaEEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSD 324
Cdd:pfam00817 114 -----------------------------EALAKRLRREIAEETGLTCSIGIAPNKLLAKLASD 148
PRK03103 PRK03103
DNA polymerase IV; Reviewed
 102-493 8.83e-36

DNA polymerase IV; Reviewed


Pssm-ID: 235104 [Multi-domain]  Cd Length: 409  Bit Score: 138.21  E-value: 8.83e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  102 IVHVDMDAFYAAVEMRDNPELKDKPIAVG------SMSMLATSnYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRA 175
Cdd:PRK03103   5 ILLVDMQSFYASVEKAANPELKGRPVIVSgdperrSGVVLAAC-PLAKAYGVKTAERLWEAQQKCPDLVVVKPRMQRYID 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  176 VSKEVKEILAEYDPNFMAMSLDEAYLNITQhlqerqdwpedkrryfikmgnylkidtprqeanelteyersiSPLLFeds 255
Cdd:PRK03103  84 VSLQITRILEDFTDLVEPFSIDEQFLDVTG------------------------------------------SQKLF--- 118

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  256 ppdlqpqGSPFqlnseeqnnpQIAQNsvvfgtsaeevvkeIRFRIEQKTTLTASAGIAPNTMLAKVCSD---KNKPNGQY 332
Cdd:PRK03103 119 -------GSPL----------EIAQK--------------IQQRIMRETGVYARVGIGPNKLLAKMACDnfaKKNPDGLF 167

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  333 QIlpSRSAVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELyqqrALLSLLFSETSW----HYFLHIALGLGSTDLAR 408
Cdd:PRK03103 168 TL--DKEDVPADLWPLPVRKLFGVGSRMEKHLRRMGIRTIGQL----ANTPLERLKKRWgingEVLWRTANGIDYSPVTP 241

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  409 DG--ERKSMSVERTF-SEISKTEEQYSLCQELCAELAHDLQKEGLKGRTVTIKLKNVNFEVKT---RASTVPAAISTAEE 482
Cdd:PRK03103 242 HSldRQKAIGHQMTLpRDYRGFEEIKVVLLELCEEVCRRARAKGYMGRTVSVSLRGADFDWPTgfsRQMTLPEPTNLAME 321

                        410
                 ....*....|.
gi 56160406  483 IFAIAKELLRT 493
Cdd:PRK03103 322 VYEAACKLFHR 332
PRK03352 PRK03352
DNA polymerase IV; Validated
 102-491 5.52e-35

DNA polymerase IV; Validated


Pssm-ID: 179564 [Multi-domain]  Cd Length: 346  Bit Score: 134.38  E-value: 5.52e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  102 IVHVDMDAFYAAVEMRDNPELKDKPIAVG-------SMSMLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYR 174
Cdd:PRK03352   7 VLHVDLDQFIAAVELLRRPELAGLPVIVGgngdptePRKVVTCASYEARAFGVRAGMPLRTAARRCPDAVFLPSDPAAYD 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  175 AVSKEVKEILAEYDPNFMAMSLDEAYLNITqhlqerqdwpedkrryfikmgnylkidtprqeanelteyersispllfED 254
Cdd:PRK03352  87 AASEEVMATLRDLGVPVEVWGWDEAFLGVD------------------------------------------------TD 118

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  255 SPpdlqpqgspfqlnseeqnnpqiaqnsvvfgtsaEEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQI 334
Cdd:PRK03352 119 DP---------------------------------EALAEEIRAAVLERTGLSCSVGIGDNKLRAKIATGFAKPAGVFRL 165

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  335 lpSRSAVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTEL-YQQRALLSLLFSETSWHYFLHIALGLGSTDL-ARDGER 412
Cdd:PRK03352 166 --TDANWMAVMGDRPTDALWGVGPKTAKRLAALGITTVADLaAADPAELAATFGPTTGPWLLLLARGGGDTEVsAEPWVP 243

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  413 KSMSVERTFSE-ISKTEEQYSLCQELCAELAHDLQKEGLKGRTVTIKLKNVNFEVKTRASTVPAAISTAEEIFAIAKELL 491
Cdd:PRK03352 244 RSRSREVTFPQdLTDRAEVESAVRELARRVLDEVVAEGRPVTRVAVKVRTATFYTRTKIRKLPEPTTDPDVIEAAALDVL 323
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
 103-378 6.67e-35

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: 134.91  E-value: 6.67e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 103 VHVDMDAFYAAVEMRDNPELKDKPIAVGSMSMLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVP-PNFDKYRAVSKEVK 181
Cdd:cd01703   1 IHLDLDCFYAQVEEIRDPSLKSKPLGIQQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNgEDLTPFRDMSKKVY 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 182 EILAEYDPNFMA--MSLDEAYLNITqhlqerqdwpeDKRryfikmgnylkidtprqeanelteyersispLLFedsppdl 259
Cdd:cd01703  81 RLLRSYSWNDRVerLGFDENFMDVT-----------EMR-------------------------------LLV------- 111

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 260 qpqGSpfqlnseeqnnpQIAQnsvvfgtsaeevvkEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILP-SR 338
Cdd:cd01703 112 ---AS------------HIAY--------------EMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQQTTLLPpSC 162

                       250       260       270       280
                ....*....|....*....|....*....|....*....|
gi 56160406 339 SAVMDFIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQQ 378
Cdd:cd01703 163 ADLMDFMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEF 202
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
 103-492 1.56e-34

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: 133.59  E-value: 1.56e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 103 VHVDMDAFYAAVEMRDNPELKDKPIAVGSMSMLATSNYHARRFGVRAAMPGFIAKRLCPQLII--VPP------------ 168
Cdd:cd01702   1 AHIDMDAFFAQVEQVRLGLLRNDPVAVVQWNSIIAVSYAARAFGVTRFMTIDEAKKKCPDLILahVATykkgedeadyhe 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 169 ---------NFDKYRAVSKEVKEILAEYDPNFMAMSLDEAYLnitqhlqerqdwpedkrryfikmgnylkidtprqeane 239
Cdd:cd01702  81 npsparhkvSLDPYRRASRKILNILKRFGDVVEKASIDEAYL-------------------------------------- 122

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 240 lteyersispllfedsppDLqpqgspfqlnseeqnnpqiaqnsvvfgtsAEEVVKEIRFRIEQKTTLTASAGIAPNTMLA 319
Cdd:cd01702 123 ------------------DL-----------------------------GSRIVEEIRQQVYDELGYTCSAGIAHNKMLA 155

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 320 KVCSDKNKPNGQyQILPSrSAVMDFIKDLPIRKVSGI-GKVTEKMLMALGIVTCTELYQQRALLSLL---FSET--SWHY 393
Cdd:cd01702 156 KLASGMNKPNAQ-TILRN-DAVASFLSSLPITSIRGLgGKLGEEIIDLLGLPTEGDVAGFRSSESDLqehFGEKlgEWLY 233

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 394 flHIALGLGSTDLARDGERKSMSVERTFS--EISKTEEQYSLCQELCAELAHDLQKE----GLKGRTVTIKLKNVNFEVK 467
Cdd:cd01702 234 --NLLRGIDHEPVKPRPLPKSMGSSKNFPgkTALSTEDVQHWLLVLASELNSRLEDDryenNRRPKTLVLSLRQRGDGVR 311

                       410       420
                ....*....|....*....|....*
gi 56160406 468 TRASTvPAAISTAEEIFAIAKELLR 492
Cdd:cd01702 312 RSRSC-ALPRYDAQKIVKDAFKLIK 335
PRK01216 PRK01216
DNA polymerase IV; Validated
 102-369 5.31e-31

DNA polymerase IV; Validated


Pssm-ID: 179251 [Multi-domain]  Cd Length: 351  Bit Score: 123.36  E-value: 5.31e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  102 IVHVDMDAFYAAVEMRDNPELKDKPIAVGSMS-------MLATSNYHARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYR 174
Cdd:PRK01216   3 ILFVDFDYFFAQVEEVLNPSLKGKPVVVCVYSgrfedsgAVATANYEARKLGIKAGMPIVEAKKILPNAVYLPMRKEVYQ 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  175 AVSKEVKEILAEYDPNFMAMSLDEAYLNITQhlqerqdwpedkrryfiKMGNYlkidtprQEANELTeyersispllfed 254
Cdd:PRK01216  83 QVSNRIMKLLREYSEKIEIASIDEAYLDISD-----------------KVKNY-------QDAYNLG------------- 125

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  255 sppdlqpqgspfqlnseeqnnpqiaqnsvvfgtsaeevvKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQI 334
Cdd:PRK01216 126 ---------------------------------------LEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVI 166

                        250       260       270
                 ....*....|....*....|....*....|....*
gi 56160406  335 LPSRsaVMDFIKDLPIRKVSGIGKVTEKMLMALGI 369
Cdd:PRK01216 167 DDEE--VKRFINELDIADIPGIGDITAEKLKKLGV 199
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
 105-492 3.42e-27

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: 112.26  E-value: 3.42e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 105 VDMDAFYAAVEMRDNPELKDKPIAVGS---MSMLATSNyHARRFGVRAAMPGFIAKRLCPQL--IIVPPNFDKYRAVSKE 179
Cdd:cd01700   3 VDCNSFYASCERVFRPLLLGRPLVVLSnndGCVIARSP-EAKALGIKMGSPYFKVPDLLERHgvAVFSSNYALYGDMSRR 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 180 VKEILAEYDPNFMAMSLDEAylnitqhlqerqdwpedkrryFIKMGNYLKIDTPRqeanelteyersispllfedsppdl 259
Cdd:cd01700  82 IMSILERFSPDVEVYSIDES---------------------FLDLTGSLRFGDLE------------------------- 115

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 260 qpqgspfqlnseeqnnpqiaqnsvvfgtsaeEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSD----KNKPNGQYQIL 335
Cdd:cd01700 116 -------------------------------ELARKIRRRILQETGIPVTVGIGPTKTLAKLANDlakkKNPYGGVVDLT 164

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 336 --PSRSAVMdfiKDLPIRKVSGIGKVTEKMLMALGIVT-----CTELYQQRALLSLLFSETSWHyfLHialGLGSTDLAR 408
Cdd:cd01700 165 deEVRDKLL---KILPVGDVWGIGRRTAKKLNAMGIHTagdlaQADPDLLRKKFGVVGERLVRE--LN---GIDCLPLEE 236

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 409 -DGERKSMSVERTFSE-ISKTEEQYSLCQELCAELAHDLQKEGLKGRTVTIKLKNVNF--EVKTRASTVPAAISTAE--E 482
Cdd:cd01700 237 yPPPKKSIGSSRSFGRdVTDLDELKQALAEYAERAAEKLRRQKSVARTISVFIGTSGFsrQPKYYSATNTLPYPTNDtrE 316

                       410
                ....*....|
gi 56160406 483 IFAIAKELLR 492
Cdd:cd01700 317 IVKAALRLLY 326
IMS_C pfam11799
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
 412-492 9.91e-20

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: 84.15  E-value: 9.91e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406   412 RKSMSVERTFSE-ISKTEEQYSLCQELCAELAHDLQKEGLKGRTVTIKLKNVNFEVKTRASTVPAAISTAEEIFAIAKEL 490
Cdd:pfam11799   1 RKSIGAERTFGRdLTDLEELREALLELAEELAERLRRQGLVARTVTVKIRYSDFRTITRSVTLPSPTDDTDEIYRAALRL 80


                  ..
gi 56160406   491 LR 492
Cdd:pfam11799  81 LR 82
umuC PRK03609
translesion error-prone DNA polymerase V subunit UmuC;
104-378 3.09e-05

translesion error-prone DNA polymerase V subunit UmuC;


Pssm-ID: 179607 [Multi-domain]  Cd Length: 422  Bit Score: 46.30  E-value: 3.09e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  104 HVDMDAFYAAVEMRDNPELKDKPIAVGSMS---MLATSNyHARRFGVRAAMPGFIAK--RLCPQLIIVPPNFDKYRAVSK 178
Cdd:PRK03609   4 LCDVNSFYASCETVFRPDLRGKPVVVLSNNdgcVIARSA-EAKALGIKMGDPWFKQKdlFRRCGVVCFSSNYELYADMSN 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  179 EVKEILAEYDPNFMAMSLDEAYLNITqhlqerqdwpedkrryfikmgnylKIDTPRqeanELTEYERsispllfedsppd 258
Cdd:PRK03609  83 RVMSTLEELSPRVEIYSIDEAFCDLT------------------------GVRNCR----DLTDFGR------------- 121

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406  259 lqpqgspfqlnseeqnnpqiaqnsvvfgtsaeevvkEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKpngQYQilPSR 338
Cdd:PRK03609 122 ------------------------------------EIRATVLQRTHLTVGVGIAQTKTLAKLANHAAK---KWQ--RQT 160

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*....
gi 56160406  339 SAVMD---------FIKDLPIRKVSGIGKVTEKMLMALGIVTCTELYQQ 378
Cdd:PRK03609 161 GGVVDlsnlerqrkLLSLQPVEEVWGVGRRISKKLNAMGIKTALDLADT 209
IMS_HHH pfam11798
IMS family HHH motif; These proteins are involved in UV protection, eg.
 338-369 3.54e-05

IMS family HHH motif; These proteins are involved in UV protection, eg.


Pssm-ID: 432081 [Multi-domain]  Cd Length: 32  Bit Score: 40.84  E-value: 3.54e-05
                          10        20        30
                  ....*....|....*....|....*....|..
gi 56160406   338 RSAVMDFIKDLPIRKVSGIGKVTEKMLMALGI 369
Cdd:pfam11798   1 PDDVPEFLWPLPISKIPGIGKKLAEKLKALGI 32
PolY_like cd03468
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ...
 296-492 1.67e-03

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: 40.83  E-value: 1.67e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 296 IRFRIEQKTT-LTASAGIAPNTMLAKVCSDKNKPNGQYQIlPSRSAVMDFIKDLPIRkVSGIGKVTEKMLMALGIVT--- 371
Cdd:cd03468 119 ASLRAALATLgLSARAGIADTPGAAWLLARAGGGRGVLRR-EALAAALVLLAPLPVA-ALRLPPETVELLARLGLRTlgd 196

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56160406 372 CTELYqqRALLSLLFSE--TSWHYFLhialgLGSTDLARDG----ERKSMSVERTF-SEISKTEEQysLCQELCAELAHD 444
Cdd:cd03468 197 LAALP--RAELARRFGLalLLRLDQA-----YGRDPEPLLFspppPAFDFRLELQLeEPIARGLLF--PLRRLLEQLCAF 267

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 56160406 445 LQKEGLKGRTVTIKLKNVNFEVKTRASTVPAAISTAEEIFAIAKELLR 492
Cdd:cd03468 268 LALRGLGARRLSLTLFREDGRVTRVLVGLARPSRDDLPLLRLLRERLE 315
 
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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