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Conserved domains on  [gi|2783286033|ref|WP_369024585|]
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DNA polymerase IV [Mycoplasma capricolum]

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 ...
 7-352 1.15e-117

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: 345.66  E-value: 1.15e-117
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   7 IHIDMDAFFASCMQLKHPELKNKPIVISNSFDKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNISSQ 86
Cdd:cd03586     1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSSDRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  87 IWEFIKTnYTNKIEIASIDEAYLDVSDLILNI-DVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNGITLT 165
Cdd:cd03586    81 IMEILRE-YTPLVEPLSIDEAYLDVTDYVRLFgSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVI 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 166 TINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKKGLVLKNEALGLGSDYINYlSSEYKSI 245
Cdd:cd03586   160 PPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEP-DRERKSI 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 246 SKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRYkidekiFDKQkhvtSKHKQITLKNHTNDLEKIY 325
Cdd:cd03586   239 GVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKY------ADFS----TRTRSRTLPEPTDDAEDIY 308

                         330       340
                  ....*....|....*....|....*..
gi 2783286033 326 NSAIDCFYNLYEQnKGILLIGVGVSKL 352
Cdd:cd03586   309 ELALELLEELLDG-RPIRLLGVRLSGL 334
 
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 ...
 7-352 1.15e-117

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: 345.66  E-value: 1.15e-117
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   7 IHIDMDAFFASCMQLKHPELKNKPIVISNSFDKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNISSQ 86
Cdd:cd03586     1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSSDRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  87 IWEFIKTnYTNKIEIASIDEAYLDVSDLILNI-DVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNGITLT 165
Cdd:cd03586    81 IMEILRE-YTPLVEPLSIDEAYLDVTDYVRLFgSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVI 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 166 TINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKKGLVLKNEALGLGSDYINYlSSEYKSI 245
Cdd:cd03586   160 PPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEP-DRERKSI 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 246 SKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRYkidekiFDKQkhvtSKHKQITLKNHTNDLEKIY 325
Cdd:cd03586   239 GVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKY------ADFS----TRTRSRTLPEPTDDAEDIY 308

                         330       340
                  ....*....|....*....|....*..
gi 2783286033 326 NSAIDCFYNLYEQnKGILLIGVGVSKL 352
Cdd:cd03586   309 ELALELLEELLDG-RPIRLLGVRLSGL 334
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 4-350 1.52e-89

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 273.94  E-value: 1.52e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   4 KTIIHIDMDAFFASCMQLKHPELKNKPIVISNSFDKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNI 83
Cdd:COG0389     1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGGDNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRDV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  84 SSQIWEFIKTnYTNKIEIASIDEAYLDVSDLILNI-DVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNGI 162
Cdd:COG0389    81 SRRVMAILER-YTPLVEPLSIDEAFLDVTGSARLFgSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 163 TLTTINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKKGLVLKNEALGLGSDYINYlSSEY 242
Cdd:COG0389   160 TVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKVGERLYRLARGIDPRPVEP-RRPR 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 243 KSISKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRYkidekifDKQKHVTskhKQITLKNHTNDLE 322
Cdd:COG0389   239 KSIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRT-------SDFRTTT---RSRTLPEPTDDTA 308

                         330       340
                  ....*....|....*....|....*...
gi 2783286033 323 KIYNSAIDCFYNLYEQNKGILLIGVGVS 350
Cdd:COG0389   309 ELLRAARELLERIYRPGRPVRLLGVRLS 336
PRK01810 PRK01810
DNA polymerase IV; Validated
 6-406 2.17e-74

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 237.62  E-value: 2.17e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   6 IIHIDMDAFFASCMQLKHPELKNKPIVISNSFD--KSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNI 83
Cdd:PRK01810    7 IFHVDMNSFFASVEIAYDPSLQGKPLAVAGNEKerKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRRPNFDRYREA 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  84 SSQIWEFIKTnYTNKIEIASIDEAYLDVSDLILNIDVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNGIT 163
Cdd:PRK01810   87 SRQMFQILSE-FTPLVQPVSIDEGYLDITDCYALGSPLEIAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKPLGIT 165

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 164 LTTINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKKGLVLKNEALGLGSDYINYLS-SEY 242
Cdd:PRK01810  166 VLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGINGVRLQRRANGIDDRPVDPEAiYQF 245

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 243 KSISKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRYKidekifDKQKHVTSKhkqiTLKNHTNDLE 322
Cdd:PRK01810  246 KSVGNSTTLSHDMDEEKELLDVLRRLSKSVSKRLQKKTVVSYNVQIMIRYH------DRRTITRSK----TLKNPIWEKR 315

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 323 KIYNSAIDCFYNLYEQNKgILLIGVGVSKLIHKNQNWVQLDINNQINIDKKQidnalKIENMIFNINKKFKKPVIWKAKD 402
Cdd:PRK01810  316 DIFQAASRLFKQHWNGDP-VRLLGVTATDLEWKTEAVKQLDLFSFEEDAKEE-----PLLAVIDQINDKYGMPLLQRGSQ 389


                  ....
gi 2783286033 403 LKKS 406
Cdd:PRK01810  390 LLRK 393
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 9-154 2.38e-60

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 192.40  E-value: 2.38e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   9 IDMDAFFASCMQLKHPELKNKPIVISNSFDKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNISSQIW 88
Cdd:pfam00817   1 IDMDAFFASVELLRDPELKGKPVAVGGGNGRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKIF 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2783286033  89 EFIKTNYTNKIEIASIDEAYLDVSDLI-LNIDVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMST 154
Cdd:pfam00817  81 EILRRFSTPKVEQASIDEAFLDLTGLEkLFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLAS 147
 
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 ...
 7-352 1.15e-117

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: 345.66  E-value: 1.15e-117
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   7 IHIDMDAFFASCMQLKHPELKNKPIVISNSFDKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNISSQ 86
Cdd:cd03586     1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSSDRGVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSRQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  87 IWEFIKTnYTNKIEIASIDEAYLDVSDLILNI-DVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNGITLT 165
Cdd:cd03586    81 IMEILRE-YTPLVEPLSIDEAYLDVTDYVRLFgSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVI 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 166 TINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKKGLVLKNEALGLGSDYINYlSSEYKSI 245
Cdd:cd03586   160 PPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEP-DRERKSI 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 246 SKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRYkidekiFDKQkhvtSKHKQITLKNHTNDLEKIY 325
Cdd:cd03586   239 GVERTFSEDLTDPEELLEELLELAEELAERLRKRGLKGRTVTVKLKY------ADFS----TRTRSRTLPEPTDDAEDIY 308

                         330       340
                  ....*....|....*....|....*..
gi 2783286033 326 NSAIDCFYNLYEQnKGILLIGVGVSKL 352
Cdd:cd03586   309 ELALELLEELLDG-RPIRLLGVRLSGL 334
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
 4-350 1.52e-89

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 273.94  E-value: 1.52e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   4 KTIIHIDMDAFFASCMQLKHPELKNKPIVISNSFDKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNI 83
Cdd:COG0389     1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGGDNNRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRDV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  84 SSQIWEFIKTnYTNKIEIASIDEAYLDVSDLILNI-DVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNGI 162
Cdd:COG0389    81 SRRVMAILER-YTPLVEPLSIDEAFLDVTGSARLFgSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 163 TLTTINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKKGLVLKNEALGLGSDYINYlSSEY 242
Cdd:COG0389   160 TVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKVGERLYRLARGIDPRPVEP-RRPR 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 243 KSISKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRYkidekifDKQKHVTskhKQITLKNHTNDLE 322
Cdd:COG0389   239 KSIGVERTFGEDLTDLEELEAALRRLAERLAERLRRQGLGARTVTVKLRT-------SDFRTTT---RSRTLPEPTDDTA 308

                         330       340
                  ....*....|....*....|....*...
gi 2783286033 323 KIYNSAIDCFYNLYEQNKGILLIGVGVS 350
Cdd:COG0389   309 ELLRAARELLERIYRPGRPVRLLGVRLS 336
PRK01810 PRK01810
DNA polymerase IV; Validated
 6-406 2.17e-74

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 237.62  E-value: 2.17e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   6 IIHIDMDAFFASCMQLKHPELKNKPIVISNSFD--KSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNI 83
Cdd:PRK01810    7 IFHVDMNSFFASVEIAYDPSLQGKPLAVAGNEKerKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRRPNFDRYREA 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  84 SSQIWEFIKTnYTNKIEIASIDEAYLDVSDLILNIDVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNGIT 163
Cdd:PRK01810   87 SRQMFQILSE-FTPLVQPVSIDEGYLDITDCYALGSPLEIAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKPLGIT 165

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 164 LTTINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKKGLVLKNEALGLGSDYINYLS-SEY 242
Cdd:PRK01810  166 VLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGINGVRLQRRANGIDDRPVDPEAiYQF 245

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 243 KSISKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRYKidekifDKQKHVTSKhkqiTLKNHTNDLE 322
Cdd:PRK01810  246 KSVGNSTTLSHDMDEEKELLDVLRRLSKSVSKRLQKKTVVSYNVQIMIRYH------DRRTITRSK----TLKNPIWEKR 315

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 323 KIYNSAIDCFYNLYEQNKgILLIGVGVSKLIHKNQNWVQLDINNQINIDKKQidnalKIENMIFNINKKFKKPVIWKAKD 402
Cdd:PRK01810  316 DIFQAASRLFKQHWNGDP-VRLLGVTATDLEWKTEAVKQLDLFSFEEDAKEE-----PLLAVIDQINDKYGMPLLQRGSQ 389


                  ....
gi 2783286033 403 LKKS 406
Cdd:PRK01810  390 LLRK 393
PRK14133 PRK14133
DNA polymerase IV; Provisional
 6-352 2.40e-64

DNA polymerase IV; Provisional


Pssm-ID: 184529 [Multi-domain]  Cd Length: 347  Bit Score: 209.57  E-value: 2.40e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   6 IIHIDMDAFFASCMQLKHPELKNKPIVISNSFDKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNISS 85
Cdd:PRK14133    5 IIHVDMDAFFASVEQMDNPKLKGKPVIVGGISERGVVSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVRHERYKEVSK 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  86 QIWEfIKTNYTNKIEIASIDEAYLDVSDliLNIDVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNGITLT 165
Cdd:PRK14133   85 NIFK-ILYEVTPIVEPVSIDEAYLDITN--IKEEPIKIAKYIKKKVKKETGLTLSVGISYNKFLAKLASDWNKPDGIKII 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 166 TINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKKGLVLKNEALGLGSDYINyLSSEYKSI 245
Cdd:PRK14133  162 TEDMIPDILKPLPISKVHGIGKKSVEKLNNIGIYTIEDLLKLSREFLIEYFGKFGVEIYERIRGIDYREVE-VSRERKSI 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 246 SKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIrykidekifdKQKHVTSKHKQITLKNHTNDLEKIY 325
Cdd:PRK14133  241 GKETTLKKDTKDKEELKKYLKDFSNIISEELKKRNLYGKTVTVKI----------KTSDFQTHTKSKTLNDYIRDKEEIY 310

                         330       340       350
                  ....*....|....*....|....*....|
gi 2783286033 326 NSAidcfYNLYEQNK---GILLIGVGVSKL 352
Cdd:PRK14133  311 NVA----CEILEHINikePIRLIGLSVSNL 336
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
 9-154 2.38e-60

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 192.40  E-value: 2.38e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   9 IDMDAFFASCMQLKHPELKNKPIVISNSFDKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNISSQIW 88
Cdd:pfam00817   1 IDMDAFFASVELLRDPELKGKPVAVGGGNGRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKIF 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2783286033  89 EFIKTNYTNKIEIASIDEAYLDVSDLI-LNIDVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMST 154
Cdd:pfam00817  81 EILRRFSTPKVEQASIDEAFLDLTGLEkLFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLAS 147
PRK03103 PRK03103
DNA polymerase IV; Reviewed
 4-407 2.89e-56

DNA polymerase IV; Reviewed


Pssm-ID: 235104 [Multi-domain]  Cd Length: 409  Bit Score: 190.21  E-value: 2.89e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   4 KTIIHIDMDAFFASCMQLKHPELKNKPIVISNSFDK--SIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFIS 81
Cdd:PRK03103    3 RVILLVDMQSFYASVEKAANPELKGRPVIVSGDPERrsGVVLAACPLAKAYGVKTAERLWEAQQKCPDLVVVKPRMQRYI 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  82 NISSQIWEFIKTnYTNKIEIASIDEAYLDVS-DLILNIDVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSL---N 157
Cdd:PRK03103   83 DVSLQITRILED-FTDLVEPFSIDEQFLDVTgSQKLFGSPLEIAQKIQQRIMRETGVYARVGIGPNKLLAKMACDNfakK 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 158 KPNGITLTTINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSdaqiYELLNKK----GLVLKNEALGLGSD 233
Cdd:PRK03103  162 NPDGLFTLDKEDVPADLWPLPVRKLFGVGSRMEKHLRRMGIRTIGQLANTP----LERLKKRwginGEVLWRTANGIDYS 237

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 234 YINYLS-SEYKSISKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRykidEKIFDkqkHVTSKHKQI 312
Cdd:PRK03103  238 PVTPHSlDRQKAIGHQMTLPRDYRGFEEIKVVLLELCEEVCRRARAKGYMGRTVSVSLR----GADFD---WPTGFSRQM 310

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 313 TLKNHTNDLEKIYNSAIDCFYNLYeQNKGILLIGVGVSKLIHKNQnwVQLDINNqinidkkQIDNALKIENMIFNINKKF 392
Cdd:PRK03103  311 TLPEPTNLAMEVYEAACKLFHRHW-DGKPVRRVGVTLSNLVSDDV--WQLSLFG-------DRERKRSLGYVMDDIKNRF 380

                         410
                  ....*....|....*
gi 2783286033 393 KKPVIWKAKDLKKSS 407
Cdd:PRK03103  381 GPTAILRASSLTEAG 395
PRK02406 PRK02406
DNA polymerase IV; Validated
 11-352 1.15e-55

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 186.86  E-value: 1.15e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  11 MDAFFASCMQLKHPELKNKPIVISNSFDK-SIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNISSQIWE 89
Cdd:PRK02406    1 MDCFYAAVEMRDNPELRGKPVAVGGSPGRrGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIRE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  90 fIKTNYTNKIEIASIDEAYLDVSDLILNI----DVlqlAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNGITLT 165
Cdd:PRK02406   81 -IFRRYTDLIEPLSLDEAYLDVTDNKLCIgsatLI---AQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVI 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 166 T---INNFrnnIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKKGLVLKNEALGLGSDYINYlSSEY 242
Cdd:PRK02406  157 TpeeVDAF---LATLPVEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFGKFGRRLYERARGIDERPVKP-DRER 232

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 243 KSISKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQ--LLCKTIEIKIRYKiDekiFdkqkhvtskhkQITLKNHTND 320
Cdd:PRK02406  233 KSVGVERTFAEDLYDLEACLAELPRLAEKLERRLERAKpdKRIKTVGVKLKFA-D---F-----------QQTTKEHTAD 297

                         330       340       350
                  ....*....|....*....|....*....|....*..
gi 2783286033 321 LekiYNSAIDCF---YNLYEQ--NKGILLIGVGVSKL 352
Cdd:PRK02406  298 P---LDKADLIEllaQALLRRlgGRGVRLLGVGVTLL 331
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
 9-351 2.85e-47

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: 164.64  E-value: 2.85e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   9 IDMDAFFASCMQLKHPELKNKPIVI-SNSfDKSIIsAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFI--SNISS 85
Cdd:cd01700     3 VDCNSFYASCERVFRPLLLGRPLVVlSNN-DGCVI-ARSPEAKALGIKMGSPYFKVPDLLERHGVAVFSSNYAlyGDMSR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  86 QIWEFIKTnYTNKIEIASIDEAYLDVSDLILNIDVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSL----NKPNG 161
Cdd:cd01700    81 RIMSILER-FSPDVEVYSIDESFLDLTGSLRFGDLEELARKIRRRILQETGIPVTVGIGPTKTLAKLANDLakkkNPYGG 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 162 ITLTTINNFRNNIWPI-PINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKKGLVLKNEALGlgsdyINYLS- 239
Cdd:cd01700   160 VVDLTDEEVRDKLLKIlPVGDVWGIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFGVVGERLVRELNG-----IDCLPl 234

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 240 SEYKSISKET----TLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRYkideKIFDKQkhVTSKHKQITLK 315
Cdd:cd01700   235 EEYPPPKKSIgssrSFGRDVTDLDELKQALAEYAERAAEKLRRQKSVARTISVFIGT----SGFSRQ--PKYYSATNTLP 308

                         330       340       350
                  ....*....|....*....|....*....|....*.
gi 2783286033 316 NHTNDLEKIYNSAIDCFYNLYEQNKGILLIGVGVSK 351
Cdd:cd01700   309 YPTNDTREIVKAALRLLYAIYRPGYAYRKAGVMLSD 344
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
 5-352 5.41e-42

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: 152.47  E-value: 5.41e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   5 TIIHIDMDAFFASCMQLKHPELKNKPIVI-SNSFDKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNI 83
Cdd:cd01701    48 IIMHVDFDCFFVSVSIRNRPDLKGKPVAVcHGKGPNSEIASCNYEARSYGIKNGMWVGQAKKLCPQLVTLPYDFEAYEEV 127

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  84 SSQIWEFIKtNYTNKIEIASIDEAYLDVSDLI--LNIDVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNG 161
Cdd:cd01701   128 SLTFYEILA-SYTDNIEAVSCDEALIDITSLLeeTYELPEELAEAIRNEIRETTGCSASVGIGPNILLARLATRKAKPDG 206

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 162 ITLTTINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLS---DAQIYELLNKKGLVLKNEALGLGSDYINYl 238
Cdd:cd01701   207 QYHLSAEKVEEFLSQLKVGDLPGVGSSLAEKLVKLFGDTCGGLELRSktkEKLQKVLGPKTGEKLYDYCRGIDDRPVTG- 285

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 239 SSEYKSISKEttLNTPI--YQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRYKIDEKIFDKQKH-----VTSKHKQ 311
Cdd:cd01701   286 EKERKSVSAE--INYGIrfTNVDDVEQFLQRLSEELSKRLEESNVTGRQITLKLMKRAPGAPIEPPKYmghgiCDSFSKS 363

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|.
gi 2783286033 312 ITLKNHTNDLEKIYNSAIDCFYNLYEQNKGILLIGVGVSKL 352
Cdd:cd01701   364 STLGVATDDSGVIGTEAKKLFRDLSIPPEELRGVGIQVTKL 404
PolY cd00424
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
 8-229 2.00e-38

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: 141.34  E-value: 2.00e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   8 HIDMDAFFASCMQLKHPELKNKPI-VISNSFDKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNISSQ 86
Cdd:cd00424     2 HIDFDNFFASVEQLARPELKGRPVvVVPFNSDSTCVIACSYEARKYGVKRGMPVREARKMCPNLILVPARLDLYRRLSER 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  87 IWEFIKTnYTNKIEIASIDEAYLDVSDL-ILNIDVLQLAKNIQKDIYNHFN-LTCSLGIGFNRFSAKMSTSLNKPNGITL 164
Cdd:cd00424    82 LLSELEE-VAPLVEVASIDELFLDLTGSaRLLGLGSEVALRIKRHIAEQLGgITASIGIASNKLLAKLAAKYAKPDGLTI 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2783286033 165 TTINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDL-ALLSDAQIYELLNKKGLVLKNEALG 229
Cdd:cd00424   161 LDPEDLPGFLSKLPLTDLPGIGAVTAKRLEAVGINPIGDLlAASPDALLALWGGVSGERLWYALRG 226
PRK02794 PRK02794
DNA polymerase IV; Provisional
 5-352 1.37e-34

DNA polymerase IV; Provisional


Pssm-ID: 179473 [Multi-domain]  Cd Length: 419  Bit Score: 132.75  E-value: 1.37e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   5 TIIHIDMDAFFASCMQLKHPELKNKPIVISNSfDKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNIS 84
Cdd:PRK02794   37 SIAHIDCDAFYASVEKRDNPELRDKPVIIGGG-KRGVVSTACYIARIHGVRSAMPMFKALKLCPDAVVIKPDMEKYVRVG 115

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  85 SQIWEFIKTnYTNKIEIASIDEAYLDVSD---LILNIDVLQLAKnIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNG 161
Cdd:PRK02794  116 REVRAMMQA-LTPLVEPLSIDEAFLDLSGterLHGAPPAVVLAR-FARRVEREIGITVSVGLSYNKFLAKIASDLDKPRG 193

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 162 ITLTTINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKKGLVLKNEALGLGSDYINyLSSE 241
Cdd:PRK02794  194 FSVIGRAEALAFLAPKPVGIIWGVGPATAARLARDGIRTIGDLQRADEADLMRRFGSMGLRLWRLARGIDDRKVS-PDRE 272

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 242 YKSISKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRykidekifdkqkhvTSKHKQIT----LKNH 317
Cdd:PRK02794  273 AKSVSAETTFETDLSDFEDLEPILWRLSEKVSRRLKAAGLAGRTVTLKLK--------------TADFRLRTrrrtLEDP 338

                         330       340       350
                  ....*....|....*....|....*....|....*
gi 2783286033 318 TNDLEKIYNSAIDCFYNLYEQNKgILLIGVGVSKL 352
Cdd:PRK02794  339 TQLADRIFRTARELLEKETDGTA-FRLIGIGVSDL 372
PRK03348 PRK03348
DNA polymerase IV; Provisional
 5-352 3.77e-34

DNA polymerase IV; Provisional


Pssm-ID: 235118 [Multi-domain]  Cd Length: 454  Bit Score: 131.98  E-value: 3.77e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   5 TIIHIDMDAFFASCMQLKHPELKNKPIVISNSFDKSIISAASYEARKYNIKAAMPLFKAKKLyqkiISIRADI-----NF 79
Cdd:PRK03348    6 WVLHLDMDAFFASVEQLTRPTLRGRPVLVGGLGGRGVVAGASYEARVFGARSAMPMHQARRL----VGNGAVVlpprfVV 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  80 ISNISSQIWEFIKTnYTNKIEIASIDEAYLDVSDL--ILNIDVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLN 157
Cdd:PRK03348   82 YRAASRRVFDTLRE-LSPVVEQLSFDEAFVEPAELagASAEEVEAFAERLRARVREETGLPASVGAGSGKQIAKIASGLA 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 158 KPNGITLTTINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKK-GLVLKNEALGLgSDYIN 236
Cdd:PRK03348  161 KPDGIRVVPPGEERELLAPLPVRRLWGIGPVTEEKLHRLGIETIGDLAALSEAEVANLLGATvGPALHRLARGI-DDRPV 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 237 YLSSEYKSISKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRykidekIFDKQKHVTSKhkqiTLKN 316
Cdd:PRK03348  240 AERAEAKQISAESTFAVDLTTRAQLREAIERIAEHAHRRLLKDGRGARTVTVKLR------KSDFSTLTRSA----TLPY 309

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|
gi 2783286033 317 HTNDLEKIYNSA----IDCfynlyEQNKGILLIGVGVSKL 352
Cdd:PRK03348  310 ATDDAAVLAATArrllLDP-----DEIGPIRLVGVGFSGL 344
PRK01216 PRK01216
DNA polymerase IV; Validated
 6-218 2.04e-30

DNA polymerase IV; Validated


Pssm-ID: 179251 [Multi-domain]  Cd Length: 351  Bit Score: 119.89  E-value: 2.04e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   6 IIHIDMDAFFASCMQLKHPELKNKPIVI---SNSFDKS-IISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFIS 81
Cdd:PRK01216    3 ILFVDFDYFFAQVEEVLNPSLKGKPVVVcvySGRFEDSgAVATANYEARKLGIKAGMPIVEAKKILPNAVYLPMRKEVYQ 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  82 NISSQIWEFIKtNYTNKIEIASIDEAYLDVSDLILNID-VLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPN 160
Cdd:PRK01216   83 QVSNRIMKLLR-EYSEKIEIASIDEAYLDISDKVKNYQdAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPN 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2783286033 161 GITLTTINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNK 218
Cdd:PRK01216  162 GIKVIDDEEVKRFINELDIADIPGIGDITAEKLKKLGVNKLVDTLRIEFDELKGIIGE 219
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
 8-219 1.05e-27

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: 112.41  E-value: 1.05e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   8 HIDMDAFFASCMQLKHPELKNKPIVISNSfdKSIIsAASYEARKYNIKAAMPLFKAKKLYQKIISIR------------- 74
Cdd:cd01702     2 HIDMDAFFAQVEQVRLGLLRNDPVAVVQW--NSII-AVSYAARAFGVTRFMTIDEAKKKCPDLILAHvatykkgedeady 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  75 ----------ADINFISNISSQIWEFIKtNYTNKIEIASIDEAYLDVSDlilnidvlQLAKNIQKDIYNHFNLTCSLGIG 144
Cdd:cd01702    79 henpsparhkVSLDPYRRASRKILNILK-RFGDVVEKASIDEAYLDLGS--------RIVEEIRQQVYDELGYTCSAGIA 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 145 FNRFSAKMSTSLNKPNGITL---TTINNFrnnIWPIPINKMYG----VGESSIKILNhtkIKTIKDLALL--SDAQIYEL 215
Cdd:cd01702   150 HNKMLAKLASGMNKPNAQTIlrnDAVASF---LSSLPITSIRGlggkLGEEIIDLLG---LPTEGDVAGFrsSESDLQEH 223


                  ....
gi 2783286033 216 LNKK 219
Cdd:cd01702   224 FGEK 227
PRK03352 PRK03352
DNA polymerase IV; Validated
 6-347 4.07e-26

DNA polymerase IV; Validated


Pssm-ID: 179564 [Multi-domain]  Cd Length: 346  Bit Score: 107.80  E-value: 4.07e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   6 IIHIDMDAFFASCMQLKHPELKNKPIVISNSFD----KSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFIS 81
Cdd:PRK03352    7 VLHVDLDQFIAAVELLRRPELAGLPVIVGGNGDptepRKVVTCASYEARAFGVRAGMPLRTAARRCPDAVFLPSDPAAYD 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  82 NISSQIWEFIKTnYTNKIEIASIDEAYLDVSdlilNIDVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNG 161
Cdd:PRK03352   87 AASEEVMATLRD-LGVPVEVWGWDEAFLGVD----TDDPEALAEEIRAAVLERTGLSCSVGIGDNKLRAKIATGFAKPAG 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 162 ITLTTinnfRNNIWPI----PINKMYGVGESSIKILNHTKIKTIKDLAlLSDAQ--IYELLNKKGLVLKNEALGLGSDYI 235
Cdd:PRK03352  162 VFRLT----DANWMAVmgdrPTDALWGVGPKTAKRLAALGITTVADLA-AADPAelAATFGPTTGPWLLLLARGGGDTEV 236

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 236 NYLSSEYKSISKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRYKIdekifdkqkhVTSKHKQITLK 315
Cdd:PRK03352  237 SAEPWVPRSRSREVTFPQDLTDRAEVESAVRELARRVLDEVVAEGRPVTRVAVKVRTAT----------FYTRTKIRKLP 306

                         330       340       350
                  ....*....|....*....|....*....|..
gi 2783286033 316 NHTNDLEKIYNSAIDCFyNLYEQNKGILLIGV 347
Cdd:PRK03352  307 EPTTDPDVIEAAALDVL-DRFELDRPVRLLGV 337
PRK03858 PRK03858
DNA polymerase IV; Validated
 5-364 3.53e-25

DNA polymerase IV; Validated


Pssm-ID: 179663 [Multi-domain]  Cd Length: 396  Bit Score: 105.84  E-value: 3.53e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   5 TIIHIDMDAFFASCMQLKHPELKNKPIVISNsfdkSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADINFISNIS 84
Cdd:PRK03858    5 SILHADLDSFYASVEQRDDPALRGRPVIVGG----GVVLAASYEAKAYGVRTAMGGRQARRLCPQAVVVPPRMSAYSRAS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  85 SQIWEFIKtNYTNKIEIASIDEAYLDVSDLI-LNIDVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNGIT 163
Cdd:PRK03858   81 KAVFEVFR-DTTPLVEGLSIDEAFLDVGGLRrISGTPVQIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAKPDGLL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 164 LTTINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNK-KGLVLknEALGLGSDYINY-LSSE 241
Cdd:PRK03858  160 VVPPDRELAFLHPLPVRRLWGVGPVTAAKLRAHGITTVGDVAELPESALVSLLGPaAGRHL--HALAHNRDPRRVeTGRR 237

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 242 YKSISKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRykidekiFDKQKHVTSKHkqiTLKNHTNDL 321
Cdd:PRK03858  238 RRSVGAQRALGRGPNSPAEVDAVVVALVDRVARRMRAAGRTGRTVVLRLR-------FDDFTRATRSH---TLPRPTAST 307

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*.
gi 2783286033 322 EKIYNSAIDCFYN---LYEQnKGILLIGVGVSKLihKNQNWVQLDI 364
Cdd:PRK03858  308 ATLLAAARDLVAAaapLIAE-RGLTLVGFAVSNL--DDDGAQQLEL 350
PTZ00205 PTZ00205
DNA polymerase kappa; Provisional
 5-372 9.40e-23

DNA polymerase kappa; Provisional


Pssm-ID: 140232 [Multi-domain]  Cd Length: 571  Bit Score: 100.48  E-value: 9.40e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   5 TIIHIDMDAFFASCMQLKHPELKNKPIVISNsfdKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADI---NFIS 81
Cdd:PTZ00205  134 TYIHLDMDMFYAAVEIKKHPEYAAIPLAIGT---MTMLQTANYVARGRGIRQGMPGFLALKICPNLLILPPDFdayNEES 210

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  82 NISSQIWEFIKTNYTnkieIASIDEAYLDVSDLILNIDVLQLAKNIQKD----IYNHFNLTCSLGIGFNRFSAKMSTSLN 157
Cdd:PTZ00205  211 NTVRRIVAEYDPNYI----SFGLDELTLEVSAYIERFEGTKTAEDVASElrvrVFGETKLTASAGIGPTAALAKIASNIN 286

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 158 KPNG---ITLTTINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKKGLVLKNEALGLGS-- 232
Cdd:PTZ00205  287 KPNGqhdLNLHTRGDVMTYVRDLGLRSVPGVGKVTEALLKGLGITTLSDIYNRRVELCYILHNNLFRFLLGASIGIMQwp 366

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 233 DYINYLSSE---------YKSISKETTLNTPiYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRYKidekifdkqk 303
Cdd:PTZ00205  367 DAATAANTEncegatggqRKAISSERSFTTP-RTKEGLQEMVDTVFNGAYEEMRKSELMCRQISLTIRWA---------- 435

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2783286033 304 hvTSKHKQIT--LKNHTNDLEKIYNSAIDCFYNLYEQNKGILLIGVGVSKLIHKNQNWVQLDINNQINIDK 372
Cdd:PTZ00205  436 --SYRYQQYTksLIQYSDDSATLRRAVDGLLLPHAAKYSEMCLLGVRFLDLISAKDFHMKRKGGNQLSISQ 504
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
 7-231 3.11e-21

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: 94.46  E-value: 3.11e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   7 IHIDMDAFFASCMQLKHPELKNKPIVISNsfdKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRA-DINFISNISS 85
Cdd:cd01703     1 IHLDLDCFYAQVEEIRDPSLKSKPLGIQQ---KYIVVTCNYEARRLGVKKLMSIKDAKEICPDLVLVNGeDLTPFRDMSK 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  86 QIWEFIKtNYT--NKIEIASIDEAYLDVSDLILNIDVlQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNGIT 163
Cdd:cd01703    78 KVYRLLR-SYSwnDRVERLGFDENFMDVTEMRLLVAS-HIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQQT 155

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2783286033 164 L------TTINNFRNniwPIPINKMYGVGESSIKILNHTKIKTIKDLAlLSDAQIYELLNKKGLVLKNEALGLG 231
Cdd:cd01703   156 TllppscADLMDFMD---LHDLRKIPGIGYKTAAKLEAHGISSVRDLQ-EFSNRNRQTVGAAPSLLELLLMVKE 225
IMS_C pfam11799
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
 243-356 5.56e-19

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: 81.45  E-value: 5.56e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 243 KSISKETTLNTPIYQYDEIETIILNLSKFITNKLMKNQLLCKTIEIKIRYkidekifdkqKHVTSKHKQITLKNHTNDLE 322
Cdd:pfam11799   2 KSIGAERTFGRDLTDLEELREALLELAEELAERLRRQGLVARTVTVKIRY----------SDFRTITRSVTLPSPTDDTD 71

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2783286033 323 KIYNSAIDCFYNLYeQNKGILLIGVGVSKLIHKN 356
Cdd:pfam11799  72 EIYRAALRLLRRLY-RGRPVRLLGVSLSNLVPEG 104
umuC PRK03609
translesion error-prone DNA polymerase V subunit UmuC;
8-206 4.17e-18

translesion error-prone DNA polymerase V subunit UmuC;


Pssm-ID: 179607 [Multi-domain]  Cd Length: 422  Bit Score: 85.59  E-value: 4.17e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   8 HIDMDAFFASCMQLKHPELKNKPIVISNSFDKSIIsAASYEARKYNIKAAMPLFKAKKLY--QKIISIRADINFISNISS 85
Cdd:PRK03609    4 LCDVNSFYASCETVFRPDLRGKPVVVLSNNDGCVI-ARSAEAKALGIKMGDPWFKQKDLFrrCGVVCFSSNYELYADMSN 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  86 QIWEFIKtNYTNKIEIASIDEAYLDVSDLILNIDVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKP-----N 160
Cdd:PRK03609   83 RVMSTLE-ELSPRVEIYSIDEAFCDLTGVRNCRDLTDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANHAAKKwqrqtG 161

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 2783286033 161 GIT-LTTINNFRNNIWPIPINKMYGVGESSIKILNHTKIKTIKDLAL 206
Cdd:PRK03609  162 GVVdLSNLERQRKLLSLQPVEEVWGVGRRISKKLNAMGIKTALDLAD 208
PolY_like cd03468
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ...
 9-229 7.82e-09

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: 56.62  E-value: 7.82e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033   9 IDMDAFFASCMQLKHPELKNKPIVISNSFDKSIISAASYEARKYNIKAAMPLFKAKKLYQKIISIRADinfisniSSQIW 88
Cdd:cd03468     3 LWFPRLPLDALLRNRPADDEAPLAVVERKKAGRILACNAAARAAGVRPGMPLAEALALCPNLQVVEYD-------PEADA 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033  89 EFIK------TNYTNKIEIASIDEAYLDVSDLILNIDVLQLAKNIQKDIYNHFNLTCSLGIGFNRFSAKMSTSLNKPNGI 162
Cdd:cd03468    76 RALQelalwlLRFTPLVALDGPDGLLLDVTGCLHLFGGEDALAASLRAALATLGLSARAGIADTPGAAWLLARAGGGRGV 155

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2783286033 163 ---TLTTINNFRNNIWPIPINkmyGVGESSIKILNHTKIKTIKDLALLSDAQIYELLNKKGLVLKNEALG 229
Cdd:cd03468   156 lrrEALAAALVLLAPLPVAAL---RLPPETVELLARLGLRTLGDLAALPRAELARRFGLALLLRLDQAYG 222
 
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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