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Conserved domains on  [gi|1533180264|gb|RRW31320|]
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DNA polymerase IV [Stutzerimonas stutzeri]

Protein Classification

DNA polymerase IV( domain architecture ID 11479788)

DNA polymerase IV facilitates translesion synthesis (TLS), a process that allows the bypass of a variety of DNA lesions

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PRK02406 PRK02406
DNA polymerase IV; Validated
14-354 0e+00

DNA polymerase IV; Validated


:

Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 593.25  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  14 CDCFYAAIEMRDDPSLARRPIAVGGAADRRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYREASREIHE 93
Cdd:PRK02406    1 MDCFYAAVEMRDNPELRGKPVAVGGSPGRRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIRE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  94 IFRTYTEQIEPLSLDEAYLDVSACEHFAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDGLFVVTPAQ 173
Cdd:PRK02406   81 IFRRYTDLIEPLSLDEAYLDVTDNKLCIGSATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPEE 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 174 VEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAFGERLWGLAWGIDERPVQVESRRQSVSVEQT 253
Cdd:PRK02406  161 VDAFLATLPVEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFGKFGRRLYERARGIDERPVKPDRERKSVGVERT 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 254 YDRDLPDLAACLERLPELLQQLSTRMARLDSGYRPGKPFVKLKFHDFTQTTLEQAGAGLELDDYADLLATAFSRRA--RP 331
Cdd:PRK02406  241 FAEDLYDLEACLAELPRLAEKLERRLERAKPDKRIKTVGVKLKFADFQQTTKEHTADPLDKADLIELLAQALLRRLggRG 320
                         330       340
                  ....*....|....*....|...
gi 1533180264 332 VRLIGVGVRLIDLRGGFEQLRLF 354
Cdd:PRK02406  321 VRLLGVGVTLLEPQLERQLLLDL 343
 
Name Accession Description Interval E-value
PRK02406 PRK02406
DNA polymerase IV; Validated
14-354 0e+00

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 593.25  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  14 CDCFYAAIEMRDDPSLARRPIAVGGAADRRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYREASREIHE 93
Cdd:PRK02406    1 MDCFYAAVEMRDNPELRGKPVAVGGSPGRRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIRE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  94 IFRTYTEQIEPLSLDEAYLDVSACEHFAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDGLFVVTPAQ 173
Cdd:PRK02406   81 IFRRYTDLIEPLSLDEAYLDVTDNKLCIGSATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPEE 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 174 VEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAFGERLWGLAWGIDERPVQVESRRQSVSVEQT 253
Cdd:PRK02406  161 VDAFLATLPVEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFGKFGRRLYERARGIDERPVKPDRERKSVGVERT 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 254 YDRDLPDLAACLERLPELLQQLSTRMARLDSGYRPGKPFVKLKFHDFTQTTLEQAGAGLELDDYADLLATAFSRRA--RP 331
Cdd:PRK02406  241 FAEDLYDLEACLAELPRLAEKLERRLERAKPDKRIKTVGVKLKFADFQQTTKEHTADPLDKADLIELLAQALLRRLggRG 320
                         330       340
                  ....*....|....*....|...
gi 1533180264 332 VRLIGVGVRLIDLRGGFEQLRLF 354
Cdd:PRK02406  321 VRLLGVGVTLLEPQLERQLLLDL 343
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
10-342 1.14e-168

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: 473.16  E-value: 1.14e-168
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  10 IHIDCDCFYAAIEMRDDPSLARRPIAVGGAADRrGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYREASR 89
Cdd:cd03586     1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSSDR-GVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSR 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  90 EIHEIFRTYTEQIEPLSLDEAYLDVSACEHFAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDGLFVV 169
Cdd:cd03586    80 QIMEILREYTPLVEPLSIDEAYLDVTDYVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVI 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 170 TPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAFGERLWGLAWGIDERPVQVESRRQSVS 249
Cdd:cd03586   160 PPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEPDRERKSIG 239
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 250 VEQTYDRDLPDLAACLERLPELLQQLSTRMARldSGYRPGKPFVKLKFHDFTQTTLEQA--GAGLELDDYADLLATAFSR 327
Cdd:cd03586   240 VERTFSEDLTDPEELLEELLELAEELAERLRK--RGLKGRTVTVKLKYADFSTRTRSRTlpEPTDDAEDIYELALELLEE 317
                         330
                  ....*....|....*..
gi 1533180264 328 --RARPVRLIGVGVRLI 342
Cdd:cd03586   318 llDGRPIRLLGVRLSGL 334
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
7-339 2.12e-146

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 416.85  E-value: 2.12e-146
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264   7 RKIIHIDCDCFYAAIEMRDDPSLARRPIAVGGAAdRRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYRE 86
Cdd:COG0389     1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGGDN-NRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRD 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  87 ASREIHEIFRTYTEQIEPLSLDEAYLDVSACEHFAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDGL 166
Cdd:COG0389    80 VSRRVMAILERYTPLVEPLSIDEAFLDVTGSARLFGSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGL 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 167 FVVTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAFGERLWGLAWGIDERPVQVESRRQ 246
Cdd:COG0389   160 TVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKVGERLYRLARGIDPRPVEPRRPRK 239
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 247 SVSVEQTYDRDLPDLAACLERLPELLQQLSTRMARldSGYRPGKPFVKLKFHDFTQTTLEQAGAGLeLDDYADLLATA-- 324
Cdd:COG0389   240 SIGVERTFGEDLTDLEELEAALRRLAERLAERLRR--QGLGARTVTVKLRTSDFRTTTRSRTLPEP-TDDTAELLRAAre 316
                         330
                  ....*....|....*....
gi 1533180264 325 ----FSRRARPVRLIGVGV 339
Cdd:COG0389   317 llerIYRPGRPVRLLGVRL 335
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
12-159 7.81e-66

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 204.73  E-value: 7.81e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  12 IDCDCFYAAIEMRDDPSLARRPIAVGGAaDRRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYREASREI 91
Cdd:pfam00817   1 IDMDAFFASVELLRDPELKGKPVAVGGG-NGRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKI 79
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1533180264  92 HEIFRTY-TEQIEPLSLDEAYLDVSACEHFAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASE 159
Cdd:pfam00817  80 FEILRRFsTPKVEQASIDEAFLDLTGLEKLFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLASD 148
POLXc smart00483
DNA polymerase X family; includes vertebrate polymerase beta and terminal ...
166-216 4.68e-03

DNA polymerase X family; includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases


Pssm-ID: 214688  Cd Length: 334  Bit Score: 38.50  E-value: 4.68e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 1533180264  166 LFVVTPAQVEEFVKAL-EVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSL 216
Cdd:smart00483  73 SSKVLEILNDEVYKSLkLFTNVFGVGPKTAAKWYRKGIRTLEELKKNKELKL 124
 
Name Accession Description Interval E-value
PRK02406 PRK02406
DNA polymerase IV; Validated
14-354 0e+00

DNA polymerase IV; Validated


Pssm-ID: 235035 [Multi-domain]  Cd Length: 343  Bit Score: 593.25  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  14 CDCFYAAIEMRDDPSLARRPIAVGGAADRRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYREASREIHE 93
Cdd:PRK02406    1 MDCFYAAVEMRDNPELRGKPVAVGGSPGRRGVISTCNYEARKFGVRSAMPTAQALKLCPDLIFVPGRFDVYKEVSRQIRE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  94 IFRTYTEQIEPLSLDEAYLDVSACEHFAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDGLFVVTPAQ 173
Cdd:PRK02406   81 IFRRYTDLIEPLSLDEAYLDVTDNKLCIGSATLIAQEIRQDIFEELGLTASAGVAPNKFLAKIASDWNKPNGLFVITPEE 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 174 VEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAFGERLWGLAWGIDERPVQVESRRQSVSVEQT 253
Cdd:PRK02406  161 VDAFLATLPVEKIPGVGKVTAEKLHALGIYTCADLQKYDLAELIRHFGKFGRRLYERARGIDERPVKPDRERKSVGVERT 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 254 YDRDLPDLAACLERLPELLQQLSTRMARLDSGYRPGKPFVKLKFHDFTQTTLEQAGAGLELDDYADLLATAFSRRA--RP 331
Cdd:PRK02406  241 FAEDLYDLEACLAELPRLAEKLERRLERAKPDKRIKTVGVKLKFADFQQTTKEHTADPLDKADLIELLAQALLRRLggRG 320
                         330       340
                  ....*....|....*....|...
gi 1533180264 332 VRLIGVGVRLIDLRGGFEQLRLF 354
Cdd:PRK02406  321 VRLLGVGVTLLEPQLERQLLLDL 343
PolY_Pol_IV_kappa cd03586
DNA Polymerase IV/Kappa; Pol IV, also known as Pol kappa, DinB, and Dpo4, is a translesion ...
10-342 1.14e-168

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: 473.16  E-value: 1.14e-168
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  10 IHIDCDCFYAAIEMRDDPSLARRPIAVGGAADRrGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYREASR 89
Cdd:cd03586     1 IHIDMDAFYASVEQRDNPELKGKPVAVGGSSDR-GVVSTASYEARKFGVRSAMPIFQAKKLCPNLIFVPPRFDKYREVSR 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  90 EIHEIFRTYTEQIEPLSLDEAYLDVSACEHFAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDGLFVV 169
Cdd:cd03586    80 QIMEILREYTPLVEPLSIDEAYLDVTDYVRLFGSATEIAKEIRARIREETGLTASAGIAPNKFLAKIASDLNKPNGLTVI 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 170 TPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAFGERLWGLAWGIDERPVQVESRRQSVS 249
Cdd:cd03586   160 PPEDVEEFLAPLPVRKIPGVGKVTAEKLKELGIKTIGDLAKLDVELLKKLFGKSGRRLYELARGIDNRPVEPDRERKSIG 239
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 250 VEQTYDRDLPDLAACLERLPELLQQLSTRMARldSGYRPGKPFVKLKFHDFTQTTLEQA--GAGLELDDYADLLATAFSR 327
Cdd:cd03586   240 VERTFSEDLTDPEELLEELLELAEELAERLRK--RGLKGRTVTVKLKYADFSTRTRSRTlpEPTDDAEDIYELALELLEE 317
                         330
                  ....*....|....*..
gi 1533180264 328 --RARPVRLIGVGVRLI 342
Cdd:cd03586   318 llDGRPIRLLGVRLSGL 334
DinP COG0389
Nucleotidyltransferase/DNA polymerase DinP involved in DNA repair [Replication, recombination ...
7-339 2.12e-146

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


Pssm-ID: 440158 [Multi-domain]  Cd Length: 336  Bit Score: 416.85  E-value: 2.12e-146
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264   7 RKIIHIDCDCFYAAIEMRDDPSLARRPIAVGGAAdRRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYRE 86
Cdd:COG0389     1 RRILHVDMDAFYASVEQRDRPELRGKPVAVGGDN-NRGVVAAASYEARAFGVRSGMPLFQARRLCPDLVVLPPDFELYRD 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  87 ASREIHEIFRTYTEQIEPLSLDEAYLDVSACEHFAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDGL 166
Cdd:COG0389    80 VSRRVMAILERYTPLVEPLSIDEAFLDVTGSARLFGSAEAIARRIRRRIRRETGLTVSVGIAPNKFLAKIASDLAKPDGL 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 167 FVVTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAFGERLWGLAWGIDERPVQVESRRQ 246
Cdd:COG0389   160 TVIPPGEVAAFLAPLPVEKLWGVGPKTAEKLARLGIRTIGDLAALPRAELRRRFGKVGERLYRLARGIDPRPVEPRRPRK 239
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 247 SVSVEQTYDRDLPDLAACLERLPELLQQLSTRMARldSGYRPGKPFVKLKFHDFTQTTLEQAGAGLeLDDYADLLATA-- 324
Cdd:COG0389   240 SIGVERTFGEDLTDLEELEAALRRLAERLAERLRR--QGLGARTVTVKLRTSDFRTTTRSRTLPEP-TDDTAELLRAAre 316
                         330
                  ....*....|....*....
gi 1533180264 325 ----FSRRARPVRLIGVGV 339
Cdd:COG0389   317 llerIYRPGRPVRLLGVRL 335
PRK01810 PRK01810
DNA polymerase IV; Validated
7-354 2.06e-98

DNA polymerase IV; Validated


Pssm-ID: 179337 [Multi-domain]  Cd Length: 407  Bit Score: 297.33  E-value: 2.06e-98
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264   7 RKIIHIDCDCFYAAIEMRDDPSLARRPIAVGG-AADRRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYR 85
Cdd:PRK01810    5 RVIFHVDMNSFFASVEIAYDPSLQGKPLAVAGnEKERKGIIVTCSYEARAYGIRTTMPLWEAKRLCPQLIVRRPNFDRYR 84
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  86 EASREIHEIFRTYTEQIEPLSLDEAYLDVSACEHfAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDG 165
Cdd:PRK01810   85 EASRQMFQILSEFTPLVQPVSIDEGYLDITDCYA-LGSPLEIAKMIQQRLLTELQLPCSIGIAPNKFLAKMASDMKKPLG 163
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 166 LFVVTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAFGERLWGLAWGIDERPVQVES-- 243
Cdd:PRK01810  164 ITVLRKRDVPEMLWPLPVGEMHGIGEKTAEKLKDIGIQTIGDLAKADEHILRAKLGINGVRLQRRANGIDDRPVDPEAiy 243
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 244 RRQSVSVEQTYDRDLPDLAACLERLPELLQQLSTRMARLDSGYRpgKPFVKLKFHDFTQTTLEQAGAGlELDDYADLLAT 323
Cdd:PRK01810  244 QFKSVGNSTTLSHDMDEEKELLDVLRRLSKSVSKRLQKKTVVSY--NVQIMIRYHDRRTITRSKTLKN-PIWEKRDIFQA 320
                         330       340       350
                  ....*....|....*....|....*....|....*..
gi 1533180264 324 A---FSRR--ARPVRLIGV-GVRLIDLRGGFEQLRLF 354
Cdd:PRK01810  321 AsrlFKQHwnGDPVRLLGVtATDLEWKTEAVKQLDLF 357
PRK02794 PRK02794
DNA polymerase IV; Provisional
9-347 1.41e-96

DNA polymerase IV; Provisional


Pssm-ID: 179473 [Multi-domain]  Cd Length: 419  Bit Score: 292.99  E-value: 1.41e-96
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264   9 IIHIDCDCFYAAIEMRDDPSLARRPIAVGGAadRRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYREAS 88
Cdd:PRK02794   38 IAHIDCDAFYASVEKRDNPELRDKPVIIGGG--KRGVVSTACYIARIHGVRSAMPMFKALKLCPDAVVIKPDMEKYVRVG 115
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  89 REIHEIFRTYTEQIEPLSLDEAYLDVSACEHFAG-SATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDGLF 167
Cdd:PRK02794  116 REVRAMMQALTPLVEPLSIDEAFLDLSGTERLHGaPPAVVLARFARRVEREIGITVSVGLSYNKFLAKIASDLDKPRGFS 195
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 168 VVTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAFGERLWGLAWGIDERPVQVESRRQS 247
Cdd:PRK02794  196 VIGRAEALAFLAPKPVGIIWGVGPATAARLARDGIRTIGDLQRADEADLMRRFGSMGLRLWRLARGIDDRKVSPDREAKS 275
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 248 VSVEQTYDRDLPDLAACLERLPELLQQLSTRMARldSGYRPGKPFVKLKFHDFTQTTLEQAgagleLDDYADLLATAFS- 326
Cdd:PRK02794  276 VSAETTFETDLSDFEDLEPILWRLSEKVSRRLKA--AGLAGRTVTLKLKTADFRLRTRRRT-----LEDPTQLADRIFRt 348
                         330       340
                  ....*....|....*....|....*....
gi 1533180264 327 --------RRARPVRLIGVGVRliDLRGG 347
Cdd:PRK02794  349 arellekeTDGTAFRLIGIGVS--DLSPA 375
PRK14133 PRK14133
DNA polymerase IV; Provisional
7-339 4.88e-87

DNA polymerase IV; Provisional


Pssm-ID: 184529 [Multi-domain]  Cd Length: 347  Bit Score: 266.20  E-value: 4.88e-87
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264   7 RKIIHIDCDCFYAAIEMRDDPSLARRPIAVGGAADRrGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYRE 86
Cdd:PRK14133    3 RVIIHVDMDAFFASVEQMDNPKLKGKPVIVGGISER-GVVSTCSYEARKYGVHSAMPVFMAKKRCPHGIFLPVRHERYKE 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  87 ASREIHEIFRTYTEQIEPLSLDEAYLDVSACEHfagSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDGL 166
Cdd:PRK14133   82 VSKNIFKILYEVTPIVEPVSIDEAYLDITNIKE---EPIKIAKYIKKKVKKETGLTLSVGISYNKFLAKLASDWNKPDGI 158
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 167 FVVTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAFGERLWGLAWGIDERPVQVESRRQ 246
Cdd:PRK14133  159 KIITEDMIPDILKPLPISKVHGIGKKSVEKLNNIGIYTIEDLLKLSREFLIEYFGKFGVEIYERIRGIDYREVEVSRERK 238
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 247 SVSVEQTYDRDLPDLAACLERLPELLQQLSTRMARLDSGYRPGKpfVKLKFHDFTQTTLEQAgagleLDDYADL------ 320
Cdd:PRK14133  239 SIGKETTLKKDTKDKEELKKYLKDFSNIISEELKKRNLYGKTVT--VKIKTSDFQTHTKSKT-----LNDYIRDkeeiyn 311
                         330       340
                  ....*....|....*....|..
gi 1533180264 321 LATAF---SRRARPVRLIGVGV 339
Cdd:PRK14133  312 VACEIlehINIKEPIRLIGLSV 333
PRK03858 PRK03858
DNA polymerase IV; Validated
9-353 6.99e-85

DNA polymerase IV; Validated


Pssm-ID: 179663 [Multi-domain]  Cd Length: 396  Bit Score: 262.23  E-value: 6.99e-85
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264   9 IIHIDCDCFYAAIEMRDDPSLARRPIAVGGaadrrGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYREAS 88
Cdd:PRK03858    6 ILHADLDSFYASVEQRDDPALRGRPVIVGG-----GVVLAASYEAKAYGVRTAMGGRQARRLCPQAVVVPPRMSAYSRAS 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  89 REIHEIFRTYTEQIEPLSLDEAYLDVSACEHFAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDGLFV 168
Cdd:PRK03858   81 KAVFEVFRDTTPLVEGLSIDEAFLDVGGLRRISGTPVQIAARLRRRVREEVGLPITVGVARTKFLAKVASQVAKPDGLLV 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 169 VTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFG-AFGERLWGLAWGIDERPVQVESRRQS 247
Cdd:PRK03858  161 VPPDRELAFLHPLPVRRLWGVGPVTAAKLRAHGITTVGDVAELPESALVSLLGpAAGRHLHALAHNRDPRRVETGRRRRS 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 248 VSVEQTYDRDlpdlAACLERLPELLQQLSTRMA-RLDSGYRPGKPFV-KLKFHDFTQTT----LEQAGAGLE--LDDYAD 319
Cdd:PRK03858  241 VGAQRALGRG----PNSPAEVDAVVVALVDRVArRMRAAGRTGRTVVlRLRFDDFTRATrshtLPRPTASTAtlLAAARD 316
                         330       340       350
                  ....*....|....*....|....*....|....*
gi 1533180264 320 LLATAFSR-RARPVRLIGVGVRLIDlRGGFEQLRL 353
Cdd:PRK03858  317 LVAAAAPLiAERGLTLVGFAVSNLD-DDGAQQLEL 350
PRK03348 PRK03348
DNA polymerase IV; Provisional
7-339 2.52e-82

DNA polymerase IV; Provisional


Pssm-ID: 235118 [Multi-domain]  Cd Length: 454  Bit Score: 257.56  E-value: 2.52e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264   7 RKIIHIDCDCFYAAIEMRDDPSLARRPIAVGGAADRrGVIATCNYEARAYGVRSAMASGHALKLCPDL-LILRPRMEAYR 85
Cdd:PRK03348    5 RWVLHLDMDAFFASVEQLTRPTLRGRPVLVGGLGGR-GVVAGASYEARVFGARSAMPMHQARRLVGNGaVVLPPRFVVYR 83
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  86 EASREIHEIFRTYTEQIEPLSLDEAYLDVSACEHF-AGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPD 164
Cdd:PRK03348   84 AASRRVFDTLRELSPVVEQLSFDEAFVEPAELAGAsAEEVEAFAERLRARVREETGLPASVGAGSGKQIAKIASGLAKPD 163
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 165 GLFVVTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFG-AFGERLWGLAWGIDERPVQVES 243
Cdd:PRK03348  164 GIRVVPPGEERELLAPLPVRRLWGIGPVTEEKLHRLGIETIGDLAALSEAEVANLLGaTVGPALHRLARGIDDRPVAERA 243
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 244 RRQSVSVEQTYDRDLPDLAacleRLPELLQQLSTRMAR--LDSGYRPGKPFVKLKFHDFT----QTTLEQAgagleLDDY 317
Cdd:PRK03348  244 EAKQISAESTFAVDLTTRA----QLREAIERIAEHAHRrlLKDGRGARTVTVKLRKSDFStltrSATLPYA-----TDDA 314
                         330       340
                  ....*....|....*....|....*...
gi 1533180264 318 ADLLATAFsRRAR------PVRLIGVGV 339
Cdd:PRK03348  315 AVLAATAR-RLLLdpdeigPIRLVGVGF 341
PolY_Rev1 cd01701
DNA polymerase Rev1; Rev1 is a translesion synthesis (TLS) polymerase found in eukaryotes. ...
7-279 2.80e-71

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: 227.58  E-value: 2.80e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264   7 RKIIHIDCDCFYAAIEMRDDPSLARRPIAVGGAADRRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYRE 86
Cdd:cd01701    47 RIIMHVDFDCFFVSVSIRNRPDLKGKPVAVCHGKGPNSEIASCNYEARSYGIKNGMWVGQAKKLCPQLVTLPYDFEAYEE 126
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  87 ASREIHEIFRTYTEQIEPLSLDEAYLDVSA-CEHFAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDG 165
Cdd:cd01701   127 VSLTFYEILASYTDNIEAVSCDEALIDITSlLEETYELPEELAEAIRNEIRETTGCSASVGIGPNILLARLATRKAKPDG 206
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 166 LFVVTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSD--LREWGRLSLVREFGA-FGERLWGLAWGIDERPVQVE 242
Cdd:cd01701   207 QYHLSAEKVEEFLSQLKVGDLPGVGSSLAEKLVKLFGDTCGGleLRSKTKEKLQKVLGPkTGEKLYDYCRGIDDRPVTGE 286
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|
gi 1533180264 243 SRRQSVSVEQTYD---RDLPDLAACLERlpeLLQQLSTRM 279
Cdd:cd01701   287 KERKSVSAEINYGirfTNVDDVEQFLQR---LSEELSKRL 323
IMS pfam00817
impB/mucB/samB family; These proteins are involved in UV protection (Swiss).
12-159 7.81e-66

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


Pssm-ID: 425885 [Multi-domain]  Cd Length: 148  Bit Score: 204.73  E-value: 7.81e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  12 IDCDCFYAAIEMRDDPSLARRPIAVGGAaDRRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYREASREI 91
Cdd:pfam00817   1 IDMDAFFASVELLRDPELKGKPVAVGGG-NGRGIVAAASYEARKYGVRSGMPVFEAKKLCPNLIVVPPDLELYRRASRKI 79
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1533180264  92 HEIFRTY-TEQIEPLSLDEAYLDVSACEHFAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASE 159
Cdd:pfam00817  80 FEILRRFsTPKVEQASIDEAFLDLTGLEKLFGAEEALAKRLRREIAEETGLTCSIGIAPNKLLAKLASD 148
PolY cd00424
Y-family of DNA polymerases; Y-family DNA polymerases are a specialized subset of polymerases ...
11-285 4.24e-64

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: 207.21  E-value: 4.24e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  11 HIDCDCFYAAIEMRDDPSLARRPIAVGGAADRRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYREASRE 90
Cdd:cd00424     2 HIDFDNFFASVEQLARPELKGRPVVVVPFNSDSTCVIACSYEARKYGVKRGMPVREARKMCPNLILVPARLDLYRRLSER 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  91 IHEIFRTYTEQIEPLSLDEAYLDVSACEHFAGSATRIAEDIRRRVWQQLR-ITVSAGVAPNKFLAKIASEWNKPDGLFVV 169
Cdd:cd00424    82 LLSELEEVAPLVEVASIDELFLDLTGSARLLGLGSEVALRIKRHIAEQLGgITASIGIASNKLLAKLAAKYAKPDGLTIL 161
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 170 TPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVRE-FGAFGERLWGLAWGIDERPVQVESRRQSV 248
Cdd:cd00424   162 DPEDLPGFLSKLPLTDLPGIGAVTAKRLEAVGINPIGDLLAASPDALLALwGGVSGERLWYALRGIDDEPLSPPRPRKSF 241
                         250       260       270
                  ....*....|....*....|....*....|....*..
gi 1533180264 249 SVEQTYDRDLPDLAACLERLPELLQQLSTRMARLDSG 285
Cdd:cd00424   242 SHERVLPRDSRNAEDARPLLRLLLEKLARRLRRDGRG 278
PRK03103 PRK03103
DNA polymerase IV; Reviewed
7-339 7.20e-63

DNA polymerase IV; Reviewed


Pssm-ID: 235104 [Multi-domain]  Cd Length: 409  Bit Score: 206.01  E-value: 7.20e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264   7 RKIIHIDCDCFYAAIEMRDDPSLARRPIAVGGAADRR-GVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYR 85
Cdd:PRK03103    3 RVILLVDMQSFYASVEKAANPELKGRPVIVSGDPERRsGVVLAACPLAKAYGVKTAERLWEAQQKCPDLVVVKPRMQRYI 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  86 EASREIHEIFRTYTEQIEPLSLDEAYLDVSACEHFAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASE---WNK 162
Cdd:PRK03103   83 DVSLQITRILEDFTDLVEPFSIDEQFLDVTGSQKLFGSPLEIAQKIQQRIMRETGVYARVGIGPNKLLAKMACDnfaKKN 162
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 163 PDGLFVVTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAFGERLWGLAWGIDERPVQVE 242
Cdd:PRK03103  163 PDGLFTLDKEDVPADLWPLPVRKLFGVGSRMEKHLRRMGIRTIGQLANTPLERLKKRWGINGEVLWRTANGIDYSPVTPH 242
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 243 S--RRQSVSVEQTYDRDLPDLAACLERLPELLQQLSTRmARLDsGYRPGKPFVKLKFHDF-TQTTLEQAGAGLELDDYA- 318
Cdd:PRK03103  243 SldRQKAIGHQMTLPRDYRGFEEIKVVLLELCEEVCRR-ARAK-GYMGRTVSVSLRGADFdWPTGFSRQMTLPEPTNLAm 320
                         330       340
                  ....*....|....*....|....*.
gi 1533180264 319 DLLATA---FSR--RARPVRLIGVGV 339
Cdd:PRK03103  321 EVYEAAcklFHRhwDGKPVRRVGVTL 346
PolY_Pol_iota cd01703
DNA Polymerase iota; Pol iota, also called Rad30B, is a translesion synthesis (TLS) polymerase. ...
10-279 1.94e-52

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: 177.66  E-value: 1.94e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  10 IHIDCDCFYAAIEMRDDPSLARRPIAVggaaDRRGVIATCNYEARAYGVRSAMASGHALKLCPDL-LILRPRMEAYREAS 88
Cdd:cd01703     1 IHLDLDCFYAQVEEIRDPSLKSKPLGI----QQKYIVVTCNYEARRLGVKKLMSIKDAKEICPDLvLVNGEDLTPFRDMS 76
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  89 REIHEIFRTYT--EQIEPLSLDEAYLDVSACEHFAGSatRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDG- 165
Cdd:cd01703    77 KKVYRLLRSYSwnDRVERLGFDENFMDVTEMRLLVAS--HIAYEMRERIENELGLTCCAGIASNKLLAKLVGSVNKPNQq 154
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 166 --LFVVTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLRE---------------WGRLSLVREFG-AFGERL 227
Cdd:cd01703   155 ttLLPPSCADLMDFMDLHDLRKIPGIGYKTAAKLEAHGISSVRDLQEfsnrnrqtvgaapslLELLLMVKEFGeGIGQRI 234
                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1533180264 228 WGLAWGIDERPVQVESRR-QSVSVEQTYDR-DLPDLAACLERLPELLQQLSTRM 279
Cdd:cd01703   235 WKLLFGRDTSPVKPASDFpQQISIEDSYKKcSLEEIREARNKIEELLASLLERM 288
PRK03352 PRK03352
DNA polymerase IV; Validated
4-341 1.40e-51

DNA polymerase IV; Validated


Pssm-ID: 179564 [Multi-domain]  Cd Length: 346  Bit Score: 174.83  E-value: 1.40e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264   4 TALRKIIHIDCDCFYAAIEMRDDPSLARRPIAVGGAAD---RRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPR 80
Cdd:PRK03352    2 AMPRWVLHVDLDQFIAAVELLRRPELAGLPVIVGGNGDptePRKVVTCASYEARAFGVRAGMPLRTAARRCPDAVFLPSD 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  81 MEAYREASREIHEIFRTYTEQIEPLSLDEAYLDVSACEHFAgsatrIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEW 160
Cdd:PRK03352   82 PAAYDAASEEVMATLRDLGVPVEVWGWDEAFLGVDTDDPEA-----LAEEIRAAVLERTGLSCSVGIGDNKLRAKIATGF 156
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 161 NKPDGLFVVTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFG-AFGERLWGLAWGIDERPV 239
Cdd:PRK03352  157 AKPAGVFRLTDANWMAVMGDRPTDALWGVGPKTAKRLAALGITTVADLAAADPAELAATFGpTTGPWLLLLARGGGDTEV 236
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 240 QVESR-RQSVSVEQTYDRDLPDLAACLERLPELLQQLSTRMArlDSGYRPGKPFVKLKFHDF-TQTTL----EQAGAGLE 313
Cdd:PRK03352  237 SAEPWvPRSRSREVTFPQDLTDRAEVESAVRELARRVLDEVV--AEGRPVTRVAVKVRTATFyTRTKIrklpEPTTDPDV 314
                         330       340
                  ....*....|....*....|....*...
gi 1533180264 314 LDDYADLLATAFSRRaRPVRLIGVGVRL 341
Cdd:PRK03352  315 IEAAALDVLDRFELD-RPVRLLGVRLEL 341
PRK01216 PRK01216
DNA polymerase IV; Validated
9-208 8.70e-51

DNA polymerase IV; Validated


Pssm-ID: 179251 [Multi-domain]  Cd Length: 351  Bit Score: 172.67  E-value: 8.70e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264   9 IIHIDCDCFYAAIEMRDDPSLARRPIAV---GGAADRRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYR 85
Cdd:PRK01216    3 ILFVDFDYFFAQVEEVLNPSLKGKPVVVcvySGRFEDSGAVATANYEARKLGIKAGMPIVEAKKILPNAVYLPMRKEVYQ 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  86 EASREIHEIFRTYTEQIEPLSLDEAYLDVSACEHFAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDG 165
Cdd:PRK01216   83 QVSNRIMKLLREYSEKIEIASIDEAYLDISDKVKNYQDAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNG 162
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1533180264 166 LFVVTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDL 208
Cdd:PRK01216  163 IKVIDDEEVKRFINELDIADIPGIGDITAEKLKKLGVNKLVDT 205
PolY_Pol_V_umuC cd01700
umuC subunit of DNA Polymerase V; umuC subunit of Pol V. Pol V is a bacterial translesion ...
12-281 3.12e-50

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: 171.19  E-value: 3.12e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  12 IDCDCFYAAIEMRDDPSLARRPIAVGGAADRRgVIATCNyEARAYGVrsAMASghALKLCPDLL------ILRPRMEAYR 85
Cdd:cd01700     3 VDCNSFYASCERVFRPLLLGRPLVVLSNNDGC-VIARSP-EAKALGI--KMGS--PYFKVPDLLerhgvaVFSSNYALYG 76
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  86 EASREIHEIFRTYTEQIEPLSLDEAYLDVSACEHFaGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIASE----WN 161
Cdd:cd01700    77 DMSRRIMSILERFSPDVEVYSIDESFLDLTGSLRF-GDLEELARKIRRRILQETGIPVTVGIGPTKTLAKLANDlakkKN 155
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 162 KPDGLFVVTPAQVEEFV-KALEVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAFGERLWGLAWGIDERPV- 239
Cdd:cd01700   156 PYGGVVDLTDEEVRDKLlKILPVGDVWGIGRRTAKKLNAMGIHTAGDLAQADPDLLRKKFGVVGERLVRELNGIDCLPLe 235
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|..
gi 1533180264 240 QVESRRQSVSVEQTYDRDlpdlaacLERLPELLQQLSTRMAR 281
Cdd:cd01700   236 EYPPPKKSIGSSRSFGRD-------VTDLDELKQALAEYAER 270
PolY_Pol_eta cd01702
DNA Polymerase eta; Pol eta, also called Rad30A, is a translesion synthesis (TLS) polymerase. ...
11-240 3.17e-44

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: 155.55  E-value: 3.17e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  11 HIDCDCFYAAIEMRDDPSLARRPIAVggaADRRGVIATcNYEARAYGVRSAMASGHALKLCPDLLILRPR---------- 80
Cdd:cd01702     2 HIDMDAFFAQVEQVRLGLLRNDPVAV---VQWNSIIAV-SYAARAFGVTRFMTIDEAKKKCPDLILAHVAtykkgedead 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  81 -------------MEAYREASREIHEIFRTYTEQIEPLSLDEAYLDVSAcehfagsatRIAEDIRRRVWQQLRITVSAGV 147
Cdd:cd01702    78 yhenpsparhkvsLDPYRRASRKILNILKRFGDVVEKASIDEAYLDLGS---------RIVEEIRQQVYDELGYTCSAGI 148
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 148 APNKFLAKIASEWNKPDGLFVVTPAQVEEFVKALEVKRLHG----VGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAF 223
Cdd:cd01702   149 AHNKMLAKLASGMNKPNAQTILRNDAVASFLSSLPITSIRGlggkLGEEIIDLLGLPTEGDVAGFRSSESDLQEHFGEKL 228
                         250
                  ....*....|....*..
gi 1533180264 224 GERLWGLAWGIDERPVQ 240
Cdd:cd01702   229 GEWLYNLLRGIDHEPVK 245
PTZ00205 PTZ00205
DNA polymerase kappa; Provisional
10-208 6.40e-42

DNA polymerase kappa; Provisional


Pssm-ID: 140232 [Multi-domain]  Cd Length: 571  Bit Score: 153.64  E-value: 6.40e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  10 IHIDCDCFYAAIEMRDDPSLARRPIAVGGAAdrrgVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYREASR 89
Cdd:PTZ00205  136 IHLDMDMFYAAVEIKKHPEYAAIPLAIGTMT----MLQTANYVARGRGIRQGMPGFLALKICPNLLILPPDFDAYNEESN 211
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  90 EIHEIFRTYTEQIEPLSLDEAYLDVSA-CEHFAGSATR--IAEDIRRRVWQQLRITVSAGVAPNKFLAKIASEWNKPDG- 165
Cdd:PTZ00205  212 TVRRIVAEYDPNYISFGLDELTLEVSAyIERFEGTKTAedVASELRVRVFGETKLTASAGIGPTAALAKIASNINKPNGq 291
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*
gi 1533180264 166 --LFVVTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDL 208
Cdd:PTZ00205  292 hdLNLHTRGDVMTYVRDLGLRSVPGVGKVTEALLKGLGITTLSDI 336
PolY_like cd03468
DNA Polymerase Y-family; Y-family DNA polymerases are a specialized subset of polymerases that ...
24-281 2.20e-23

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: 98.99  E-value: 2.20e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  24 RDDPSLARRPIAVGgAADRRGVIATCNYEARAYGVRSAMASGHALKLCPDLLILRPRMEAYREASREIHEIFRTYTEQIE 103
Cdd:cd03468    15 RNRPADDEAPLAVV-ERKKAGRILACNAAARAAGVRPGMPLAEALALCPNLQVVEYDPEADARALQELALWLLRFTPLVA 93
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 104 PLSLDEAYLDVSACEHFAGSATRIAEDIRRRVwQQLRITVSAGVAPNKFLAKIASEWNKPDGLFVVTPAQVEEFVKALEV 183
Cdd:cd03468    94 LDGPDGLLLDVTGCLHLFGGEDALAASLRAAL-ATLGLSARAGIADTPGAAWLLARAGGGRGVLRREALAAALVLLAPLP 172
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 184 KRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSLVREFGAFGERLWGLAWGIDERPVQVESRRQS--VSVEQTYDRDLPDL 261
Cdd:cd03468   173 VAALRLPPETVELLARLGLRTLGDLAALPRAELARRFGLALLLRLDQAYGRDPEPLLFSPPPPAfdFRLELQLEEPIARG 252
                         250       260
                  ....*....|....*....|
gi 1533180264 262 AacLERLPELLQQLSTRMAR 281
Cdd:cd03468   253 L--LFPLRRLLEQLCAFLAL 270
umuC PRK03609
translesion error-prone DNA polymerase V subunit UmuC;
11-210 8.34e-14

translesion error-prone DNA polymerase V subunit UmuC;


Pssm-ID: 179607 [Multi-domain]  Cd Length: 422  Bit Score: 72.11  E-value: 8.34e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  11 HIDCDCFYAAIEMRDDPSLARRPIAVGGAADrrGVIATCNYEARAYGVRSAMA--SGHALKLCPDLLILRPRMEAYREAS 88
Cdd:PRK03609    4 LCDVNSFYASCETVFRPDLRGKPVVVLSNND--GCVIARSAEAKALGIKMGDPwfKQKDLFRRCGVVCFSSNYELYADMS 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264  89 REIHEIFRTYTEQIEPLSLDEAYLDVSACEHfAGSATRIAEDIRRRVWQQLRITVSAGVAPNKFLAKIAS----EWNKPD 164
Cdd:PRK03609   82 NRVMSTLEELSPRVEIYSIDEAFCDLTGVRN-CRDLTDFGREIRATVLQRTHLTVGVGIAQTKTLAKLANhaakKWQRQT 160
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1533180264 165 G--LFVVTPAQVEEFVKALEVKRLHGVGRVTAEKLGRLGIRTCSDLRE 210
Cdd:PRK03609  161 GgvVDLSNLERQRKLLSLQPVEEVWGVGRRISKKLNAMGIKTALDLAD 208
IMS_C pfam11799
impB/mucB/samB family C-terminal domain; These proteins are involved in UV protection (Swiss).
245-339 1.02e-11

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: 60.65  E-value: 1.02e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1533180264 245 RQSVSVEQTYDRDLPDLAACLERLPELLQQLSTRMARLdsGYRPGKPFVKLKFHDFT----QTTLEQAgagleLDDYADL 320
Cdd:pfam11799   1 RKSIGAERTFGRDLTDLEELREALLELAEELAERLRRQ--GLVARTVTVKIRYSDFRtitrSVTLPSP-----TDDTDEI 73
                          90       100
                  ....*....|....*....|....
gi 1533180264 321 LATAFSR-----RARPVRLIGVGV 339
Cdd:pfam11799  74 YRAALRLlrrlyRGRPVRLLGVSL 97
IMS_HHH pfam11798
IMS family HHH motif; These proteins are involved in UV protection, eg.
171-202 6.27e-05

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


Pssm-ID: 432081 [Multi-domain]  Cd Length: 32  Bit Score: 39.69  E-value: 6.27e-05
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1533180264 171 PAQVEEFVKALEVKRLHGVGRVTAEKLGRLGI 202
Cdd:pfam11798   1 PDDVPEFLWPLPISKIPGIGKKLAEKLKALGI 32
DNA_pol_lambd_f pfam10391
Fingers domain of DNA polymerase lambda; DNA polymerases catalyze the addition of dNMPs onto ...
187-216 2.02e-03

Fingers domain of DNA polymerase lambda; DNA polymerases catalyze the addition of dNMPs onto the 3-prime ends of DNA chains. There is a general polymerase fold consisting of three subdomains that have been likened to the fingers, palm, and thumb of a right hand. DNA_pol_lambd_f is the central three-helical region of DNA polymerase lambda referred to as the F and G helices of the fingers domain. Contacts with DNA involve this conserved helix-hairpin-helix motif in the fingers region which interacts with the primer strand. This motif is common to several DNA binding proteins and confers a sequence-independent interaction with the DNA backbone.


Pssm-ID: 463069 [Multi-domain]  Cd Length: 51  Bit Score: 35.89  E-value: 2.02e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 1533180264 187 HGVGRVTAEKLGRLGIRTCSDLREWGRLSL 216
Cdd:pfam10391   7 YGVGPTTARKWYAQGYRTLDDLREKKTAKL 36
POLXc smart00483
DNA polymerase X family; includes vertebrate polymerase beta and terminal ...
166-216 4.68e-03

DNA polymerase X family; includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases


Pssm-ID: 214688  Cd Length: 334  Bit Score: 38.50  E-value: 4.68e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 1533180264  166 LFVVTPAQVEEFVKAL-EVKRLHGVGRVTAEKLGRLGIRTCSDLREWGRLSL 216
Cdd:smart00483  73 SSKVLEILNDEVYKSLkLFTNVFGVGPKTAAKWYRKGIRTLEELKKNKELKL 124
 
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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