BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy16215
(1041 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MR6|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With A Cpd
2bp Upstream Of The Active Site (Tt4)
pdb|3TQ1|A Chain A, Human Dna Polymerase Eta In Binary Complex With Dna
pdb|4EEY|A Chain A, Crystal Structure Of Human Dna Polymerase Eta In Ternary
Complex With A Cisplatin Dna Adduct
Length = 435
Score = 395 bits (1016), Expect = e-110, Method: Compositional matrix adjust.
Identities = 206/431 (47%), Positives = 278/431 (64%), Gaps = 16/431 (3%)
Query: 4 RIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMRGD 63
R++AL+DMDCF+ QVE + NP L KP AVVQY +WKGGGIIAV+YEAR GVTR M D
Sbjct: 10 RVVALVDMDCFFVQVEQRQNPHLRNKPCAVVQYKSWKGGGIIAVSYEARAFGVTRSMWAD 69
Query: 64 EAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVV 123
+AK+ CP++ L +V RGKA+++KYR A EV+ ++S F+ ++ERASIDEAY+DLT V
Sbjct: 70 DAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFA-VIERASIDEAYVDLTSAV 128
Query: 124 HERMKSIGH--IAASQLSNTFVVGF--GPDNNDEDA-----RKAGVMEWLGQVYSDTDTS 174
ER++ + I+A L +T++ G GP +E RK G+ +WL + D TS
Sbjct: 129 QERLQKLQGQPISADLLPSTYIEGLPQGPTTAEETVQKEGMRKQGLFQWLDSLQIDNLTS 188
Query: 175 LMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILP 234
D Q L + VIVEE+RAA+ +T F CSAGI+HNKVLAKL CGL+KP +Q+++
Sbjct: 189 -----PDLQ-LTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVS 242
Query: 235 QSSVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLY 294
SV L++ + I+K+R LGGKLG V+E L M EL +F+ QLQSHF EK SWLY
Sbjct: 243 HGSVPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWLY 302
Query: 295 YIARGIDHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLEDDLTLN 354
+ RGI+H+PV R + K+IGC K FPGKT LATR+ V W+ +LA E+ ERL D N
Sbjct: 303 AMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRNDN 362
Query: 355 KRRAQLLTVSFTQETDGKVNSCSRSIALASYKLQDIVEVSMQVINKTNSAPPISDLTPPL 414
R A L VS + D +++S R AL Y + + VI N++ ++ +PPL
Sbjct: 363 DRVATQLVVSIRVQGDKRLSSLRRCCALTRYDAHKMSHDAFTVIKNMNTSGIQTEWSPPL 422
Query: 415 LFLGLSASKFS 425
L L A+KFS
Sbjct: 423 TMLFLCATKFS 433
>pdb|3MR2|A Chain A, Human Dna Polymerase Eta In Complex With Normal Dna And
Incoming Nucleotide (Nrm)
pdb|3MR3|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With The
3't Of A Cpd In The Active Site (Tt1)
pdb|3MR5|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With A Cpd
1bp Upstream Of The Active Site (Tt3)
pdb|3SI8|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex With The
5't Of A Cpd In The Active Site (Tt2)
pdb|4DL2|A Chain A, Human Dna Polymerase Eta Inserting Dcmpnpp Opposite Cg
Template (Gg0a)
pdb|4DL3|A Chain A, Human Dna Polymerase Eta Inserting Dcmpnpp Opposite Gg
Template (Gg0b).
pdb|4DL4|A Chain A, Human Dna Polymerase Eta Inserting Dcmpnpp Opposite The
3'g Of Cisplatin Crosslinked Gs (Pt-Gg1).
pdb|4DL5|A Chain A, Human Dna Polymerase Eta Inserting Dcmpnpp Opposite The
5'g Of Cisplatin Crosslinked Gs (Pt-Gg2).
pdb|4DL6|A Chain A, Human Dna Polymerase Eta Extending Primer Immediately
After Cisplatin Crosslink (Pt-Gg3).
pdb|4DL7|A Chain A, Human Dna Polymerase Eta Fails To Extend Primer 2
Nucleotide After Cisplatin Crosslink (Pt-Gg4).
pdb|4ECQ|A Chain A, Human Dna Polymerase Eta- Dna Ternary Complex: At Crystal
At Ph6.8(K+ Mes) With 1 Ca2+ Ion
pdb|4ECR|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 40 Sec
pdb|4ECS|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 80 Sec
pdb|4ECT|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 140 Sec
pdb|4ECU|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 200 Sec
pdb|4ECV|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 230 Sec
pdb|4ECW|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 250 Sec
pdb|4ECX|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 7.0 For 300 Sec
pdb|4ECY|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 6.0 (Na+ Mes) With 1 Ca2+ Ion
pdb|4ECZ|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 6.5 (Na+ Mes) With 1 Ca2+ Ion
pdb|4ED0|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 6.8 (Na+ Mes) With 1 Ca2+ Ion
pdb|4ED1|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 7.0 (Na+ Mes) With 1 Ca2+ Ion
pdb|4ED2|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 7.2 (Na+ Hepes) With 1 Ca2+ Ion
pdb|4ED3|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: At Crystal
At Ph 7.5 (Na+ Hepes) With 1 Ca2+ Ion
pdb|4ED6|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The At Crystal At Ph 6.7 For 15 Hr, Sideway
Translocation
pdb|4ED7|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Tg Crystal
At Ph 7.0 (K+ Mes) With 1 Ca2+ Ion
pdb|4ED8|A Chain A, Human Dna Polymerase Eta - Dna Ternary Complex: Reaction
In The Tg Crystal At Ph 7.0, Normal Translocation
Length = 435
Score = 395 bits (1015), Expect = e-110, Method: Compositional matrix adjust.
Identities = 206/431 (47%), Positives = 278/431 (64%), Gaps = 16/431 (3%)
Query: 4 RIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMRGD 63
R++AL+DMDCF+ QVE + NP L KP AVVQY +WKGGGIIAV+YEAR GVTR M D
Sbjct: 10 RVVALVDMDCFFVQVEQRQNPHLRNKPCAVVQYKSWKGGGIIAVSYEARAFGVTRSMWAD 69
Query: 64 EAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVV 123
+AK+ CP++ L +V RGKA+++KYR A EV+ ++S F+ ++ERASIDEAY+DLT V
Sbjct: 70 DAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFA-VIERASIDEAYVDLTSAV 128
Query: 124 HERMKSIGH--IAASQLSNTFVVGF--GPDNNDEDA-----RKAGVMEWLGQVYSDTDTS 174
ER++ + I+A L +T++ G GP +E RK G+ +WL + D TS
Sbjct: 129 QERLQKLQGQPISADLLPSTYIEGLPQGPTTAEETVQKEGMRKQGLFQWLDSLQIDNLTS 188
Query: 175 LMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILP 234
D Q L + VIVEE+RAA+ +T F CSAGI+HNKVLAKL CGL+KP +Q+++
Sbjct: 189 -----PDLQ-LTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVS 242
Query: 235 QSSVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLY 294
SV L++ + I+K+R LGGKLG V+E L M EL +F+ QLQSHF EK SWLY
Sbjct: 243 HGSVPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWLY 302
Query: 295 YIARGIDHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLEDDLTLN 354
+ RGI+H+PV R + K+IGC K FPGKT LATR+ V W+ +LA E+ ERL D N
Sbjct: 303 AMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRNDN 362
Query: 355 KRRAQLLTVSFTQETDGKVNSCSRSIALASYKLQDIVEVSMQVINKTNSAPPISDLTPPL 414
R A L VS + D +++S R AL Y + + VI N++ ++ +PPL
Sbjct: 363 DRVATQLVVSIRVQGDKRLSSLRRCCALTRYDAHKMSHDAFTVIKNCNTSGIQTEWSPPL 422
Query: 415 LFLGLSASKFS 425
L L A+KFS
Sbjct: 423 TMLFLCATKFS 433
>pdb|2DPI|A Chain A, Ternary Complex Of Hpoli With Dna And Dctp
pdb|2DPJ|A Chain A, Structure Of Hpoli With Dna And Dttp
pdb|2FLN|A Chain A, Binary Complex Of Catalytic Core Of Human Dna Polymerase
Iota With Dna (Template A)
pdb|2FLP|A Chain A, Binary Complex Of The Catalytic Core Of Human Dna
Polymerase Iota With Dna (Template G)
pdb|2FLL|A Chain A, Ternary Complex Of Human Dna Polymerase Iota With Dna And
Dttp
pdb|3EPG|A Chain A, Structure Of Human Dna Polymerase Iota Complexed With
N2-Ethylguanine
pdb|3EPI|A Chain A, Structure Of Human Dna Polymerase Iota Complexed With
N2-Ethylguanine And Incoming Ttp
pdb|3G6V|A Chain A, Dna Synthesis Across An Abasic Lesion By Human Dna
Polymerase-Iota
pdb|3G6X|A Chain A, Ternary Complex Of Dna Polymerase Iota:dna:dgtp With An
Abasic Site At The Templating Position
pdb|3G6Y|A Chain A, Ternary Complex Of Dna Polymerase Iota:dna:dttp With An
Abasic Site At The Templating Position
pdb|3GV7|B Chain B, Human Dna Polymerase Iota In Complex With T Template Dna
And Incoming Dttp
pdb|3GV8|B Chain B, Human Dna Polymerase Iota In Complex With T Template Dna
And Incoming Dgtp
pdb|3NGD|A Chain A, Structural Basis For Proficient Incorporation Of Dttp
Opposite O6- Methylguanine By Human Dna Polymerase Iota
pdb|3OSN|A Chain A, Structural Basis For Proficient Incorporation Of Dttp
Opposite O6- Methylguanine By Human Dna Polymerase Iota
pdb|3Q8P|B Chain B, Human Dna Polymerase Iota Incorporating Dctp Opposite
8-Oxo-Guanine
pdb|3Q8Q|B Chain B, Human Dna Polymerase Iota Incorporating Datp Opposite
8-Oxo-Guanine
pdb|3Q8R|B Chain B, Human Dna Polymerase Iota Incorporating Dgtp Opposite
8-Oxo-Guanine
pdb|3Q8S|B Chain B, Human Dna Polymerase Iota Incorporating Dttp Opposite
8-Oxo-Guanine
pdb|4EBC|A Chain A, Conformationally Restrained
North-Methanocarba-2'-Deoxyadenosine Corrects The
Error-Prone Nature Of Human Dna Polymerase Iota
pdb|4EBD|A Chain A, Conformationally Restrained
North-Methanocarba-2'-Deoxyadenosine Corrects The
Error-Prone Nature Of Human Dna Polymerase Iota
pdb|4EBE|A Chain A, Conformationally Restrained
North-Methanocarba-2'-Deoxyadenosine Corrects The
Error-Prone Nature Of Human Dna Polymerase Iota
pdb|4FS1|A Chain A, Base Pairing Mechanism Of N2,3-Ethenoguanine With Dttp By
Human Polymerase Iota
pdb|4FS2|A Chain A, Base Pairing Mechanism Of N2,3-Ethenoguanine With Dctp By
Human Polymerase Iota
pdb|4EYH|B Chain B, Human Dna Polymerase Iota Incorporating Dctp Opposite N-
(deoxyguanosin-8-yl)-1-aminopyrene Lesion
pdb|4EYI|B Chain B, Human Dna Polymerase Iota Incorporating Datp Opposite N-
(deoxyguanosin-8-yl)-1-aminopyrene Lesion
Length = 420
Score = 139 bits (349), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 97/305 (31%), Positives = 161/305 (52%), Gaps = 38/305 (12%)
Query: 2 TSRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMR 61
+SR+I +D+DCFY QVE NP L KPL V Q ++ NYEAR GV + M
Sbjct: 26 SSRVIVHVDLDCFYAQVEMISNPELKDKPLGVQQKYL-----VVTCNYEARKLGVKKLMN 80
Query: 62 GDEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTD 121
+AK+ CP++ L V G+ D+++YR +V +L EFS +VER DE ++DLT+
Sbjct: 81 VRDAKEKCPQLVL-----VNGE-DLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTE 134
Query: 122 VVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTED 181
+V +R++ + + +LS V G VY++ +L++
Sbjct: 135 MVEKRLQ---QLQSDELSAVTVS--------------------GHVYNNQSINLLDVLHI 171
Query: 182 FQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSI-LPQSSVSM 240
L + I E+R A+ ++ AG+A NK+LAKLV G+ KP +Q++ LP+S +
Sbjct: 172 --RLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHL 229
Query: 241 LYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGI 300
+++ IK++ +G K + +E L +++ +L+ FS K L+ A + ++ G
Sbjct: 230 IHSLNHIKEIPGIGYKTA-KCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGE 288
Query: 301 DHEPV 305
D+ PV
Sbjct: 289 DNSPV 293
>pdb|3H40|A Chain A, Binary Complex Of Human Dna Polymerase Iota With Template
UT
Length = 389
Score = 139 bits (349), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 97/305 (31%), Positives = 161/305 (52%), Gaps = 38/305 (12%)
Query: 2 TSRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMR 61
+SR+I +D+DCFY QVE NP L KPL V Q ++ NYEAR GV + M
Sbjct: 1 SSRVIVHVDLDCFYAQVEMISNPELKDKPLGVQQKYL-----VVTCNYEARKLGVKKLMN 55
Query: 62 GDEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTD 121
+AK+ CP++ L V G+ D+++YR +V +L EFS +VER DE ++DLT+
Sbjct: 56 VRDAKEKCPQLVL-----VNGE-DLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTE 109
Query: 122 VVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTED 181
+V +R++ + + +LS V G VY++ +L++
Sbjct: 110 MVEKRLQ---QLQSDELSAVTVS--------------------GHVYNNQSINLLDVLHI 146
Query: 182 FQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSI-LPQSSVSM 240
L + I E+R A+ ++ AG+A NK+LAKLV G+ KP +Q++ LP+S +
Sbjct: 147 --RLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHL 204
Query: 241 LYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGI 300
+++ IK++ +G K + +E L +++ +L+ FS K L+ A + ++ G
Sbjct: 205 IHSLNHIKEIPGIGYKTA-KCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGE 263
Query: 301 DHEPV 305
D+ PV
Sbjct: 264 DNSPV 268
>pdb|2ALZ|A Chain A, Ternary Complex Of Hpoli With Dna And Dctp
pdb|3H4B|A Chain A, Ternary Complex Of Human Dna Polymerase Iota With Template
UT AND Incoming Datp
pdb|3H4D|A Chain A, Ternary Complex Of Human Dna Polymerase Iota With Template
UT AND Incoming Dgtp
Length = 390
Score = 138 bits (348), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 97/305 (31%), Positives = 161/305 (52%), Gaps = 38/305 (12%)
Query: 2 TSRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMR 61
+SR+I +D+DCFY QVE NP L KPL V Q ++ NYEAR GV + M
Sbjct: 2 SSRVIVHVDLDCFYAQVEMISNPELKDKPLGVQQKYL-----VVTCNYEARKLGVKKLMN 56
Query: 62 GDEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTD 121
+AK+ CP++ L V G+ D+++YR +V +L EFS +VER DE ++DLT+
Sbjct: 57 VRDAKEKCPQLVL-----VNGE-DLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTE 110
Query: 122 VVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTED 181
+V +R++ + + +LS V G VY++ +L++
Sbjct: 111 MVEKRLQ---QLQSDELSAVTVS--------------------GHVYNNQSINLLDVLHI 147
Query: 182 FQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSI-LPQSSVSM 240
L + I E+R A+ ++ AG+A NK+LAKLV G+ KP +Q++ LP+S +
Sbjct: 148 --RLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHL 205
Query: 241 LYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGI 300
+++ IK++ +G K + +E L +++ +L+ FS K L+ A + ++ G
Sbjct: 206 IHSLNHIKEIPGIGYKTA-KCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGE 264
Query: 301 DHEPV 305
D+ PV
Sbjct: 265 DNSPV 269
>pdb|1T3N|A Chain A, Structure Of The Catalytic Core Of Dna Polymerase Iota In
Complex With Dna And Dttp
pdb|1T3N|B Chain B, Structure Of The Catalytic Core Of Dna Polymerase Iota In
Complex With Dna And Dttp
pdb|1ZET|A Chain A, X-Ray Data Do Not Support Hoogsteen Base-Pairing During
Replication By Human Polymerase Iota
Length = 388
Score = 138 bits (347), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 97/304 (31%), Positives = 160/304 (52%), Gaps = 38/304 (12%)
Query: 3 SRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMRG 62
SR+I +D+DCFY QVE NP L KPL V Q ++ NYEAR GV + M
Sbjct: 1 SRVIVHVDLDCFYAQVEMISNPELKDKPLGVQQKYL-----VVTCNYEARKLGVKKLMNV 55
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
+AK+ CP++ L V G+ D+++YR +V +L EFS +VER DE ++DLT++
Sbjct: 56 RDAKEKCPQLVL-----VNGE-DLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEM 109
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF 182
V +R++ + + +LS V G VY++ +L++
Sbjct: 110 VEKRLQ---QLQSDELSAVTVS--------------------GHVYNNQSINLLDVLHI- 145
Query: 183 QELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSI-LPQSSVSML 241
L + I E+R A+ ++ AG+A NK+LAKLV G+ KP +Q++ LP+S ++
Sbjct: 146 -RLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLI 204
Query: 242 YANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGID 301
++ IK++ +G K + +E L +++ +L+ FS K L+ A + ++ G D
Sbjct: 205 HSLNHIKEIPGIGYKTA-KCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGED 263
Query: 302 HEPV 305
+ PV
Sbjct: 264 NSPV 267
>pdb|3GV5|B Chain B, Human Dna Polymerase Iota In Complex With T Template Dna
And Incoming Ddadp
pdb|3GV5|D Chain D, Human Dna Polymerase Iota In Complex With T Template Dna
And Incoming Ddadp
Length = 420
Score = 134 bits (336), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 96/305 (31%), Positives = 157/305 (51%), Gaps = 38/305 (12%)
Query: 2 TSRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMR 61
+SR+I +D+DCFY QVE NP L KPL V Q ++ NYEAR GV +
Sbjct: 26 SSRVIVHVDLDCFYAQVEXISNPELKDKPLGVQQKYL-----VVTCNYEARKLGVKKLXN 80
Query: 62 GDEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTD 121
+AK+ CP++ L V G+ D+++YR +V +L EFS +VER DE ++DLT+
Sbjct: 81 VRDAKEKCPQLVL-----VNGE-DLTRYREXSYKVTELLEEFSPVVERLGFDENFVDLTE 134
Query: 122 VVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTED 181
V +R++ + + +LS V G VY++ +L++
Sbjct: 135 XVEKRLQ---QLQSDELSAVTVS--------------------GHVYNNQSINLLDVLHI 171
Query: 182 FQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSI-LPQSSVSM 240
L + I E R A ++ AG+A NK+LAKLV G+ KP +Q++ LP+S +
Sbjct: 172 --RLLVGSQIAAEXREAXYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHL 229
Query: 241 LYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGI 300
+++ IK++ +G K + +E L +++ +L+ FS K L+ A + ++ G
Sbjct: 230 IHSLNHIKEIPGIGYKTA-KCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGE 288
Query: 301 DHEPV 305
D+ PV
Sbjct: 289 DNSPV 293
>pdb|3PZP|A Chain A, Human Dna Polymerase Kappa Extending Opposite A Cis-Syn
Thymine Dimer
pdb|3PZP|B Chain B, Human Dna Polymerase Kappa Extending Opposite A Cis-Syn
Thymine Dimer
Length = 517
Score = 91.7 bits (226), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 106/390 (27%), Positives = 165/390 (42%), Gaps = 56/390 (14%)
Query: 3 SRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMRG 62
S I IDMD FY VE + NP L KP+AV + + NY AR GV M G
Sbjct: 89 SNTIVHIDMDAFYAAVEMRDNPELKDKPIAVGSMSM-----LSTSNYHARRFGVRAAMPG 143
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
AK+ CP +L VP + KYR +EV +L+++ S+DEAY+++T
Sbjct: 144 FIAKRLCP--QLIIVP-----PNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYLNITKH 196
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGP----DNNDEDARKAGVME------WLGQVYSD-- 170
+ ER + + + G DN ++ K E + SD
Sbjct: 197 LEERQN------WPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEESPSDVQ 250
Query: 171 -------TDTSLMENTEDFQELAIAGV----IVEEIRAAVLSKTQFHCSAGIAHNKVLAK 219
+ N + Q + G +V+EIR + KT SAGIA N +LAK
Sbjct: 251 PPGDPFQVNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAK 310
Query: 220 LVCGLHKPQKQ-SILPQSSVSM-LYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFS 277
+ +KP Q ILP M +L I+KV + GK+ +++++ L T EL +
Sbjct: 311 VCSDKNKPNGQYQILPNRQAVMDFIKDLPIRKVSGI-GKVTEKMLKALGIITCTEL--YQ 367
Query: 278 LKQLQSHFEEKTASWLYY--IARGIDHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHW 335
+ L S +T SW Y+ I+ G+ + KS+ + F + + +
Sbjct: 368 QRALLSLLFSET-SWHYFLHISLGLGSTHLTRDGERKSMSVERTF-------SEINKAEE 419
Query: 336 IQELADEVCERLEDDLTLNKRRAQLLTVSF 365
L E+C L DL + + + +T+
Sbjct: 420 QYSLCQELCSELAQDLQKERLKGRTVTIKL 449
>pdb|1T94|A Chain A, Crystal Structure Of The Catalytic Core Of Human Dna
Polymerase Kappa
pdb|1T94|B Chain B, Crystal Structure Of The Catalytic Core Of Human Dna
Polymerase Kappa
Length = 459
Score = 90.5 bits (223), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 108/390 (27%), Positives = 164/390 (42%), Gaps = 56/390 (14%)
Query: 3 SRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMRG 62
S I IDMD FY VE + NP L KP+AV + NY AR GV M G
Sbjct: 33 SNTIVHIDMDAFYAAVEMRDNPELKDKPIAVGSMSMLSTS-----NYHARRFGVRAAMPG 87
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
AK+ CP +L VP + KYR +EV +L+++ S+DEAY+++T
Sbjct: 88 FIAKRLCP--QLIIVP-----PNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYLNITKH 140
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGP----DNNDEDARKAGVME------WLGQVYSD-- 170
+ ER + + + G DN ++ K E + SD
Sbjct: 141 LEERQN------WPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEESPSDVQ 194
Query: 171 -------TDTSLMENTEDFQELAIAGV----IVEEIRAAVLSKTQFHCSAGIAHNKVLAK 219
+ N + Q + G +V+EIR + KT SAGIA N +LAK
Sbjct: 195 PPGDPFQVNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAK 254
Query: 220 LVCGLHKPQKQ-SILPQSSVSM-LYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFS 277
+ +KP Q ILP M +L I+KV + GK+ +++++ L T EL +
Sbjct: 255 VCSDKNKPNGQYQILPNRQAVMDFIKDLPIRKVSGI-GKVTEKMLKALGIITCTEL--YQ 311
Query: 278 LKQLQSHFEEKTASWLYY--IARGIDHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHW 335
+ L S +T SW Y+ I+ G+ + KS+ + F + A Q
Sbjct: 312 QRALLSLLFSET-SWHYFLHISLGLGSTHLTRDGERKSMSVERTF-SEINKAEEQ----- 364
Query: 336 IQELADEVCERLEDDLTLNKRRAQLLTVSF 365
L E+C L DL + + + +T+
Sbjct: 365 -YSLCQELCSELAQDLQKERLKGRTVTIKL 393
>pdb|2OH2|A Chain A, Ternary Complex Of Human Dna Polymerase
pdb|2OH2|B Chain B, Ternary Complex Of Human Dna Polymerase
pdb|2W7O|A Chain A, Structure And Activity Of Bypass Synthesis By Human Dna
Polymerase Kappa Opposite The 7,8-Dihydro-8-
Oxodeoxyguanosine Adduct
pdb|2W7O|B Chain B, Structure And Activity Of Bypass Synthesis By Human Dna
Polymerase Kappa Opposite The 7,8-Dihydro-8-
Oxodeoxyguanosine Adduct
pdb|2W7P|A Chain A, Structure And Activity Of Bypass Synthesis By Human Dna
Polymerase Kappa Opposite The 7,8-Dihydro-8-
Oxodeoxyguanosine Adduct
pdb|2W7P|B Chain B, Structure And Activity Of Bypass Synthesis By Human Dna
Polymerase Kappa Opposite The 7,8-Dihydro-8-
Oxodeoxyguanosine Adduct
pdb|3IN5|A Chain A, Structure Of Human Dna Polymerase Kappa Inserting Datp
Opposite An 8-Oxog Dna Lesion
pdb|3IN5|B Chain B, Structure Of Human Dna Polymerase Kappa Inserting Datp
Opposite An 8-Oxog Dna Lesion
Length = 508
Score = 90.5 bits (223), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 108/390 (27%), Positives = 165/390 (42%), Gaps = 56/390 (14%)
Query: 3 SRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMRG 62
S I IDMD FY VE + NP L KP+AV + + NY AR GV M G
Sbjct: 82 SNTIVHIDMDAFYAAVEMRDNPELKDKPIAVGSMSM-----LSTSNYHARRFGVRAAMPG 136
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
AK+ CP +L VP + KYR +EV +L+++ S+DEAY+++T
Sbjct: 137 FIAKRLCP--QLIIVP-----PNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYLNITKH 189
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGP----DNNDEDARKAGVME------WLGQVYSD-- 170
+ ER + + + G DN ++ K E + SD
Sbjct: 190 LEERQN------WPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEESPSDVQ 243
Query: 171 -------TDTSLMENTEDFQELAIAGV----IVEEIRAAVLSKTQFHCSAGIAHNKVLAK 219
+ N + Q + G +V+EIR + KT SAGIA N +LAK
Sbjct: 244 PPGDPFQVNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAK 303
Query: 220 LVCGLHKPQKQ-SILPQSSVSM-LYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFS 277
+ +KP Q ILP M +L I+KV + GK+ +++++ L T EL +
Sbjct: 304 VCSDKNKPNGQYQILPNRQAVMDFIKDLPIRKVSGI-GKVTEKMLKALGIITCTEL--YQ 360
Query: 278 LKQLQSHFEEKTASWLYY--IARGIDHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHW 335
+ L S +T SW Y+ I+ G+ + KS+ + F + A Q
Sbjct: 361 QRALLSLLFSET-SWHYFLHISLGLGSTHLTRDGERKSMSVERTF-SEINKAEEQ----- 413
Query: 336 IQELADEVCERLEDDLTLNKRRAQLLTVSF 365
L E+C L DL + + + +T+
Sbjct: 414 -YSLCQELCSELAQDLQKERLKGRTVTIKL 442
>pdb|3MFH|A Chain A, Dna Polymerase Eta In Complex With Undamaged Dna
pdb|3MFI|A Chain A, Dna Polymerase Eta In Complex With A Cis-Syn Thymidine
Dimer
pdb|3OHA|A Chain A, Yeast Dna Polymerase Eta Inserting Dctp Opposite An 8oxog
Lesion
pdb|3OHB|A Chain A, Yeast Dna Polymerase Eta Extending From An 8-Oxog Lesion
Length = 520
Score = 83.2 bits (204), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 100/418 (23%), Positives = 173/418 (41%), Gaps = 88/418 (21%)
Query: 6 IALIDMDCFYCQVE---CKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMRG 62
IA IDM+ F+ QVE C L+ P+ VQ+N+ IIAV+Y AR G++R
Sbjct: 33 IAHIDMNAFFAQVEQMRCGLSKE---DPVVCVQWNS-----IIAVSYAARKYGISRMDTI 84
Query: 63 DEAKQHCPEI------------------ELC---------RVPSVRGKADISKYRNAGRE 95
EA + C + + C ++ K + YR R+
Sbjct: 85 QEALKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQISVEDHKVSLEPYRRESRK 144
Query: 96 VIAVLSEFSNIVERASIDEAYIDLTDVVHERM------KSIGHI----AASQLSNTFVVG 145
+A+ ++VERASIDE ++DL + + + G + A S + F+ G
Sbjct: 145 ALAIFKWACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGG 204
Query: 146 FGPDNNDEDA------RKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAV 199
N D ++ K +++ G V++ L+ + +D LA+ + + IR ++
Sbjct: 205 ----NYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDWDDVI-LALGSQVCKGIRDSI 259
Query: 200 LSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY--ANLSIKKVRHLGGKL 257
+ S G++ K + KL KP Q+I+ + I LGG L
Sbjct: 260 KDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGGVL 319
Query: 258 GDEVVETLQC--------------STMLELEKF-SLKQLQSHFEEKT-----------AS 291
G E+++ L +L++F K QS ++ T A
Sbjct: 320 GKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADLAE 379
Query: 292 WLYYIARGIDHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLED 349
L+ ++RG P+++R V KS+ K GK+C + +S W++ E+ R++D
Sbjct: 380 KLFKLSRGRYGLPLSSRPVVKSMMSNKNLRGKSCNSIVDCIS-WLEVFCAELTSRIQD 436
>pdb|2R8J|A Chain A, Structure Of The Eukaryotic Dna Polymerase Eta In Complex
With 1,2- D(gpg)-cisplatin Containing Dna
pdb|2R8J|B Chain B, Structure Of The Eukaryotic Dna Polymerase Eta In Complex
With 1,2- D(gpg)-cisplatin Containing Dna
pdb|2R8K|A Chain A, Structure Of The Eukaryotic Dna Polymerase Eta In Complex
With 1,2- D(gpg)-cisplatin Containing Dna
pdb|2R8K|B Chain B, Structure Of The Eukaryotic Dna Polymerase Eta In Complex
With 1,2- D(gpg)-cisplatin Containing Dna
Length = 554
Score = 81.6 bits (200), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 99/418 (23%), Positives = 172/418 (41%), Gaps = 88/418 (21%)
Query: 6 IALIDMDCFYCQVE---CKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMRG 62
IA IDM+ F+ QVE C L+ P+ VQ+N+ IIAV+Y AR G++R
Sbjct: 49 IAHIDMNAFFAQVEQMRCGLSKE---DPVVCVQWNS-----IIAVSYAARKYGISRMDTI 100
Query: 63 DEAKQHCPEI------------------ELC---------RVPSVRGKADISKYRNAGRE 95
EA + C + + C ++ K + YR R+
Sbjct: 101 QEALKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQISVEDHKVSLEPYRRESRK 160
Query: 96 VIAVLSEFSNIVERASIDEAYIDLTDVVHERM------KSIGHI----AASQLSNTFVVG 145
+ + ++VERASIDE ++DL + + + G + A S + F+ G
Sbjct: 161 ALKIFKSACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGG 220
Query: 146 FGPDNNDEDAR------KAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAV 199
N D ++ K +++ G V++ L+ + +D LA+ + + IR ++
Sbjct: 221 ----NYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDWDDVI-LALGSQVCKGIRDSI 275
Query: 200 LSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY--ANLSIKKVRHLGGKL 257
+ S G++ K + KL KP Q+I+ + I LGG L
Sbjct: 276 KDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGGVL 335
Query: 258 GDEVVETLQC--------------STMLELEKF-SLKQLQSHFEEKT-----------AS 291
G E+++ L +L++F K QS ++ T A
Sbjct: 336 GKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADLAE 395
Query: 292 WLYYIARGIDHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLED 349
L+ ++RG P+++R V KS+ K GK+C + +S W++ E+ R++D
Sbjct: 396 KLFKLSRGRYGLPLSSRPVVKSMMSNKNLRGKSCNSIVDCIS-WLEVFCAELTSRIQD 452
>pdb|1JIH|A Chain A, Yeast Dna Polymerase Eta
pdb|1JIH|B Chain B, Yeast Dna Polymerase Eta
Length = 513
Score = 81.3 bits (199), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 99/418 (23%), Positives = 171/418 (40%), Gaps = 88/418 (21%)
Query: 6 IALIDMDCFYCQVE---CKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMRG 62
IA IDM+ F+ QVE C L+ P+ VQ+N+ IIAV+Y AR G++R
Sbjct: 26 IAHIDMNAFFAQVEQMRCGLSKE---DPVVCVQWNS-----IIAVSYAARKYGISRMDTI 77
Query: 63 DEAKQHCPEI------------------ELC---------RVPSVRGKADISKYRNAGRE 95
EA + C + + C ++ K + YR R+
Sbjct: 78 QEALKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQISVEDHKVSLEPYRRESRK 137
Query: 96 VIAVLSEFSNIVERASIDEAYIDLTDVVHERM------KSIGHI----AASQLSNTFVVG 145
+ + ++VERASIDE ++DL + + + G + A S + F+ G
Sbjct: 138 ALKIFKSACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGG 197
Query: 146 FGPDNNDEDA------RKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAV 199
N D ++ K +++ G V++ L+ + +D LA+ + + IR ++
Sbjct: 198 ----NYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDWDDVI-LALGSQVCKGIRDSI 252
Query: 200 LSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY--ANLSIKKVRHLGGKL 257
+ S G++ K + KL KP Q+I+ + I LGG L
Sbjct: 253 KDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGGVL 312
Query: 258 GDEVVETLQC--------------STMLELEKF-SLKQLQSHFEEKT-----------AS 291
G E+++ L +L++F K QS ++ T A
Sbjct: 313 GKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADLAE 372
Query: 292 WLYYIARGIDHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLED 349
L+ ++RG P+++R V KS+ K GK+C + D W++ E+ R++D
Sbjct: 373 KLFKLSRGRYGLPLSSRPVVKSMMSNKNLRGKSC-NSIVDCISWLEVFCAELTSRIQD 429
>pdb|2WTF|A Chain A, Dna Polymerase Eta In Complex With The
Cis-Diammineplatinum (Ii) 1,3-Gtg Intrastrand Cross-Link
pdb|2WTF|B Chain B, Dna Polymerase Eta In Complex With The
Cis-Diammineplatinum (Ii) 1,3-Gtg Intrastrand Cross-Link
pdb|2XGP|A Chain A, Yeast Dna Polymerase Eta In Complex With C8-2-
Acetylaminofluorene Containing Dna
pdb|2XGP|B Chain B, Yeast Dna Polymerase Eta In Complex With C8-2-
Acetylaminofluorene Containing Dna
pdb|2XGQ|A Chain A, Structure Of Yeast Dna Polymerase Eta In Complex With
C8-N- Acetyl-2-Aminoanthracene Containing Dna
pdb|2XGQ|B Chain B, Structure Of Yeast Dna Polymerase Eta In Complex With
C8-N- Acetyl-2-Aminoanthracene Containing Dna
Length = 536
Score = 81.3 bits (199), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 99/418 (23%), Positives = 172/418 (41%), Gaps = 88/418 (21%)
Query: 6 IALIDMDCFYCQVE---CKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMRG 62
IA IDM+ F+ QVE C L+ P+ VQ+N+ IIAV+Y AR G++R
Sbjct: 49 IAHIDMNAFFAQVEQMRCGLSKE---DPVVCVQWNS-----IIAVSYAARKYGISRMDTI 100
Query: 63 DEAKQHCPEI------------------ELC---------RVPSVRGKADISKYRNAGRE 95
EA + C + + C ++ K + YR R+
Sbjct: 101 QEALKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQISVEDHKVSLEPYRRESRK 160
Query: 96 VIAVLSEFSNIVERASIDEAYIDLTDVVHERM------KSIGHI----AASQLSNTFVVG 145
+ + ++VERASIDE ++DL + + + G + A S + F+ G
Sbjct: 161 ALKIFKSACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGG 220
Query: 146 FGPDNNDEDA------RKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAV 199
N D ++ K +++ G V++ L+ + +D LA+ + + IR ++
Sbjct: 221 ----NYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDWDDVI-LALGSQVCKGIRDSI 275
Query: 200 LSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY--ANLSIKKVRHLGGKL 257
+ S G++ K + KL KP Q+I+ + I LGG L
Sbjct: 276 KDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGGVL 335
Query: 258 GDEVVETLQC--------------STMLELEKF-SLKQLQSHFEEKT-----------AS 291
G E+++ L +L++F K QS ++ T A
Sbjct: 336 GKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADLAE 395
Query: 292 WLYYIARGIDHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLED 349
L+ ++RG P+++R V KS+ K GK+C + +S W++ E+ R++D
Sbjct: 396 KLFKLSRGRYGLPLSSRPVVKSMMSNKNLRGKSCNSIVDCIS-WLEVFCAELTSRIQD 452
>pdb|4F4Y|A Chain A, Y-family Dna Polymerase Chimera Dbh-dpo4-dbh
pdb|4F4Y|B Chain B, Y-family Dna Polymerase Chimera Dbh-dpo4-dbh
Length = 362
Score = 80.9 bits (198), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 82/322 (25%), Positives = 128/322 (39%), Gaps = 69/322 (21%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYN--TWKGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D F+ QVE LNP GKPL V Y+ T G + NYEAR GV M
Sbjct: 2 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
+A Q P VP + Y ++ +L++ ++ +E ASIDEAY+D+T+
Sbjct: 62 IKAMQIAP--SAIYVPMRK-----PIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNK 114
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF 182
V +N E ARK
Sbjct: 115 VEGNF---------------------ENGIELARK------------------------- 128
Query: 183 QELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY 242
I+ +L K + + G+A NK+LAK++ KP ++ + V
Sbjct: 129 ------------IKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFL 176
Query: 243 ANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGIDH 302
L I ++ +G L + E L + ++ + +L+ + A +L +A+ +
Sbjct: 177 NELDIDEIPGIGSVLARRLNE-LGIQKLRDILSKNYNELEKITGKAKALYLLKLAQDEYN 235
Query: 303 EPVNARLVSKSIGCCKRFPGKT 324
EP+ R V KSIG P T
Sbjct: 236 EPIRTR-VRKSIGRYLTLPYNT 256
>pdb|4F4W|A Chain A, Y-family Dna Polymerase Chimera Dbh-dpo4-dpo4 #1
pdb|4F4W|B Chain B, Y-family Dna Polymerase Chimera Dbh-dpo4-dpo4 #1
pdb|4F4X|A Chain A, Y-family Dna Polymerase Chimera Dbh-dpo4-dpo4 #2
Length = 361
Score = 79.7 bits (195), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 80/313 (25%), Positives = 126/313 (40%), Gaps = 69/313 (22%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYN--TWKGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D F+ QVE LNP GKPL V Y+ T G + NYEAR GV M
Sbjct: 2 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
+A Q P VP + Y ++ +L++ ++ +E ASIDEAY+D+T+
Sbjct: 62 IKAMQIAP--SAIYVPMRK-----PIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNK 114
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF 182
V +N E ARK
Sbjct: 115 VEGNF---------------------ENGIELARK------------------------- 128
Query: 183 QELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY 242
I+ +L K + + G+A NK+LAK++ KP ++ + V
Sbjct: 129 ------------IKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFL 176
Query: 243 ANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGIDH 302
L I ++ +G L + E L + ++ + +L+ + A +L +A+ +
Sbjct: 177 NELDIDEIPGIGSVLARRLNE-LGIQKLRDILSKNYNELEKITGKAKALYLLKLAQDEYN 235
Query: 303 EPVNARLVSKSIG 315
EP+ R V KSIG
Sbjct: 236 EPIRTR-VRKSIG 247
>pdb|3BQ0|A Chain A, Pre-insertion Binary Complex Of Dbh Dna Polymerase
pdb|3BQ1|A Chain A, Insertion Ternary Complex Of Dbh Dna Polymerase
pdb|3BQ2|A Chain A, Post-Insertion Binary Complex Of Dbh Dna Polymerase
pdb|4HYK|A Chain A, Dbh Ternary Complex (substrates Partially Disordered)
Length = 354
Score = 75.1 bits (183), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 75/303 (24%), Positives = 119/303 (39%), Gaps = 68/303 (22%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYN--TWKGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D F+ QVE LNP GKPL V Y+ T G + NYEAR GV M
Sbjct: 2 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
+A Q P VP + Y ++ +L++ ++ +E ASIDEAY+D+T+
Sbjct: 62 IKAMQIAP--SAIYVPMRK-----PIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNK 114
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF 182
V +N E ARK
Sbjct: 115 VEGNF---------------------ENGIELARK------------------------- 128
Query: 183 QELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY 242
I+ +L K + + G+A NK+LAK++ KP ++ + V
Sbjct: 129 ------------IKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFL 176
Query: 243 ANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGIDH 302
L I ++ +G L + E L + ++ + +L+ + A +L +A+
Sbjct: 177 NELDIDEIPGIGSVLARRLNE-LGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYS 235
Query: 303 EPV 305
EPV
Sbjct: 236 EPV 238
>pdb|1K1Q|A Chain A, Crystal Structure Of A Dinb Family Error Prone Dna
Polymerase From Sulfolobus Solfataricus
pdb|1K1Q|B Chain B, Crystal Structure Of A Dinb Family Error Prone Dna
Polymerase From Sulfolobus Solfataricus
pdb|1K1S|A Chain A, Crystal Structure Of Dinb From Sulfolobus Solfataricus
Length = 354
Score = 74.7 bits (182), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 75/303 (24%), Positives = 119/303 (39%), Gaps = 68/303 (22%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYN--TWKGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D F+ QVE LNP GKPL V Y+ T G + NYEAR GV M
Sbjct: 2 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVSVYSGRTKTSGAVATANYEARKLGVKAGMPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
+A Q P VP + Y ++ +L++ ++ +E ASIDEAY+D+T+
Sbjct: 62 IKAMQIAP--SAIYVPMRK-----PIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNK 114
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF 182
V +N E ARK
Sbjct: 115 VEGNF---------------------ENGIELARK------------------------- 128
Query: 183 QELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY 242
I+ +L K + + G+A NK+LAK++ KP ++ + V
Sbjct: 129 ------------IKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFL 176
Query: 243 ANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGIDH 302
L I ++ +G L + E L + ++ + +L+ + A +L +A+
Sbjct: 177 NELDIDEIPGIGSVLARRLNE-LGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYS 235
Query: 303 EPV 305
EPV
Sbjct: 236 EPV 238
>pdb|4F50|A Chain A, Y-family Dna Polymerase Chimera Dbh-dbh-dpo4
Length = 361
Score = 74.7 bits (182), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 75/303 (24%), Positives = 119/303 (39%), Gaps = 68/303 (22%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYN--TWKGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D F+ QVE LNP GKPL V Y+ T G + NYEAR GV M
Sbjct: 2 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
+A Q P VP + Y ++ +L++ ++ +E ASIDEAY+D+T+
Sbjct: 62 IKAMQIAP--SAIYVPMRK-----PIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNK 114
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF 182
V +N E ARK
Sbjct: 115 VEGNF---------------------ENGIELARK------------------------- 128
Query: 183 QELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY 242
I+ +L K + + G+A NK+LAK++ KP ++ + V
Sbjct: 129 ------------IKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFL 176
Query: 243 ANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGIDH 302
L I ++ +G L + E L + ++ + +L+ + A +L +A+
Sbjct: 177 NELDIDEIPGIGSVLARRLNE-LGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYS 235
Query: 303 EPV 305
EPV
Sbjct: 236 EPV 238
>pdb|2UVR|A Chain A, Crystal Structures Of Mutant Dpo4 Dna Polymerases With 8-
Oxog Containing Dna Template-Primer Constructs
pdb|2UVU|A Chain A, Crystal Structures Of Mutant Dpo4 Dna Polymerases With 8-
Oxog Containing Dna Template-Primer Constructs
Length = 358
Score = 74.3 bits (181), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 8 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 67
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 68 VEAKKILP--NAVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 120
Query: 123 VHE 125
V +
Sbjct: 121 VRD 123
Score = 50.8 bits (120), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 119 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDE 175
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 176 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISL 234
Query: 297 ARGIDHEPVNARLVSKSIG 315
AR +EP+ R V KSIG
Sbjct: 235 ARDEYNEPIRTR-VRKSIG 252
>pdb|2BQ3|A Chain A, Dna Adduct Bypass Polymerization By Sulfolobus
Solfataricus Dpo4. Analysis And Crystal Structures Of
Multiple Base- Pair Substitution And Frameshift Products
With The Adduct 1,N2-Ethenoguanine
pdb|2BQR|A Chain A, Dna Adduct Bypass Polymerization By Sulfolobus
Solfataricus Dpo4. Analysis And Crystal Structures Of
Multiple Base- Pair Substitution And Frameshift Products
With The Adduct 1,N2-Ethenoguanine
pdb|2BQU|A Chain A, Dna Adduct Bypass Polymerization By Sulfolobus
Solfataricus Dpo4. Analysis And Crystal Structures Of
Multiple Base- Pair Substitution And Frameshift Products
With The Adduct 1,N2-Ethenoguanine
pdb|2BR0|A Chain A, Dna Adduct Bypass Polymerization By Sulfolobus
Solfataricus Dpo4. Analysis And Crystal Structures Of
Multiple Base- Pair Substitution And Frameshift Products
With The Adduct 1,N2-Ethenoguanine
pdb|2C22|A Chain A, Efficient And High Fidelity Incorporation Of Dctp Opposite
7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus
Solfataricus Dna Polymerase Dpo4
pdb|2C28|A Chain A, Efficient And High Fidelity Incorporation Of Dctp Opposite
7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus
Solfataricus Dna Polymerase Dpo4
pdb|2C2D|A Chain A, Efficient And High Fidelity Incorporation Of Dctp Opposite
7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus
Solfataricus Dna Polymerase Dpo4
pdb|2C2E|A Chain A, Efficient And High Fidelity Incorporation Of Dctp Opposite
7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus
Solfataricus Dna Polymerase Dpo4
pdb|2C2R|A Chain A, Efficient And High Fidelity Incorporation Of Dctp Opposite
7,8-Dihydro-8-Oxodeoxyguanosine By Sulfolobus
Solfataricus Dna Polymerase Dpo4
pdb|2J6S|A Chain A, Ternary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase, O6-Methylguanine Modified Dna, And Datp.
pdb|2J6T|A Chain A, Ternary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase, O6-Methylguanine Modified Dna, And Datp.
pdb|2J6U|A Chain A, Ternary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase, O6-methylguanine Modified Dna, And Dgtp.
pdb|2JEF|A Chain A, The Molecular Basis Of Selectivity Of Nucleotide
Triphosphate Incorporation Opposite O6-benzylguanine By
Sulfolobus Solfataricus Dna Polymerase Iv: Steady-state
And Pre-steady-state And X-ray Crystallography Of
Correct And Incorrect Pairing
pdb|2JEG|A Chain A, The Molecular Basis Of Selectivity Of Nucleoside
Triphosphate Incorporation Opposite O6-Benzylguanine By
Sulfolobus Solfataricus Dna Polymerase Iv: Steady-State
And Pre-Steady-State Kinetics And X-Ray Crystallography
Of Correct And Incorrect Pairing
pdb|2JEI|A Chain A, The Molecular Basis Of Selectivity Of Nucleoside
Triphosphate Incorporation Opposite O6-benzylguanine By
Sulfolobus Solfataricus Dna Polymerase Iv: Steady-state
And Pre-steady-state Kinetics And X-ray Crystallography
Of Correct And Incorrect Pairing
pdb|2JEJ|A Chain A, The Molecular Basis Of Selectivity Of Nucleoside
Triphosphate Incorporation Opposite O6-Benzylguanine By
Sulfolobus Solfataricus Dna Polymerase Iv: Steady-State
And Pre-Steady-State Kinetics And X-Ray Crystallography
Of Correct And Incorrect Pairing
pdb|2V9W|A Chain A, Complex Structure Of Sulfolobus Solfataricus Dpo4 And Dna
Duplex Containing A Hydrophobic Thymine Isostere 2,4-
Difluorotoluene Nucleotide In The Template Strand
pdb|2V9W|B Chain B, Complex Structure Of Sulfolobus Solfataricus Dpo4 And Dna
Duplex Containing A Hydrophobic Thymine Isostere 2,4-
Difluorotoluene Nucleotide In The Template Strand
pdb|2VA2|A Chain A, Complex Structure Of Sulfolobus Solfataricus Dpo4 And Dna
Duplex Containing A Hydrophobic Thymine Isostere 2,4-
Difluorotoluene Nucleotide In The Template Strand
pdb|2VA2|B Chain B, Complex Structure Of Sulfolobus Solfataricus Dpo4 And Dna
Duplex Containing A Hydrophobic Thymine Isostere 2,4-
Difluorotoluene Nucleotide In The Template Strand
pdb|2VA3|A Chain A, Complex Structure Of Sulfolobus Solfataricus Dpo4 And Dna
Duplex Containing A Hydrophobic Thymine Isostere 2,4-
Difluorotoluene Nucleotide In The Template Strand
pdb|2W8K|A Chain A, Y-Family Dna Polymerase Dpo4 Bypassing N2-Naphthyl-Guanine
Adduct In Syn Orientation
pdb|2W8L|A Chain A, Y-Family Dna Polymerase Dpo4 Bypassing N2-Naphthyl-Guanine
Adduct In Anti Orientation
pdb|2W9A|A Chain A, Ternary Complex Of Dpo4 Bound To N2,N2-Dimethyl-
Deoxyguanosine Modified Dna With Incoming Dgtp
pdb|2W9B|B Chain B, Binary Complex Of Dpo4 Bound To N2,N2-Dimethyl-
Deoxyguanosine Modified Dna
pdb|2W9C|B Chain B, Ternary Complex Of Dpo4 Bound To N2,N2-Dimethyl-
Deoxyguanosine Modified Dna With Incoming Dttp
pdb|2V4Q|A Chain A, Post-Insertion Complex Of The Y-Family Dna Polymerase Dpo4
With M1dg Containing Template Dna
pdb|2V4R|A Chain A, Non-Productive Complex Of The Y-Family Dna Polymerase Dpo4
With Dgtp Skipping The M1dg Adduct To Pair With The Next
Template Cytosine
pdb|2XC9|A Chain A, Binary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase And 1,N2-Ethenoguanine Modified Dna,
Magnesium Form
pdb|2XCA|A Chain A, Ternary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase, 7,8-Dihydro-8-Oxodeoxyguanine Modified Dna
And Dgtp - Magnesium Form
pdb|2XCP|A Chain A, Ternary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase, 7,8-Dihydro-8-Oxodeoxyguanine Modified Dna
And Dctp - Magnesium Form
pdb|2XCP|B Chain B, Ternary Complex Of Sulfolobus Solfataricus Dpo4 Dna
Polymerase, 7,8-Dihydro-8-Oxodeoxyguanine Modified Dna
And Dctp - Magnesium Form
pdb|4GC6|A Chain A, Crystal Structure Of Dpo4 In Complex With N-mc-damp
Opposite Dt
Length = 358
Score = 74.3 bits (181), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 8 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 67
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 68 VEAKKILP--NAVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 120
Query: 123 VHE 125
V +
Sbjct: 121 VRD 123
Score = 51.2 bits (121), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 119 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDE 175
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 176 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISL 234
Query: 297 ARGIDHEPVNARLVSKSIG 315
AR +EP+ R V KSIG
Sbjct: 235 ARDEYNEPIRTR-VRKSIG 252
>pdb|1JXL|A Chain A, Crystal Structure Of A Y-Family Dna Polymerase In A
Ternary Complex With Dna Substrates And An Incoming
Nucleotide
pdb|1N48|A Chain A, Y-Family Dna Polymerase Dpo4 In Complex With Dna
Containing Abasic Lesion
pdb|1N56|A Chain A, Y-Family Dna Polymerase Dpo4 In Complex With Dna
Containing Abasic Lesion
pdb|1N56|B Chain B, Y-Family Dna Polymerase Dpo4 In Complex With Dna
Containing Abasic Lesion
pdb|1RYR|A Chain A, Replication Of A Cis-Syn Thymine Dimer At Atomic
Resolution
pdb|1RYS|A Chain A, Replication Of A Cis-Syn Thymine Dimer At Atomic
Resolution
pdb|1RYS|B Chain B, Replication Of A Cis-Syn Thymine Dimer At Atomic
Resolution
pdb|1S0M|A Chain A, Crystal Structure Of A Benzo[a]pyrene Diol Epoxide Adduct
In A Ternary Complex With A Dna Polymerase
pdb|1S0M|B Chain B, Crystal Structure Of A Benzo[a]pyrene Diol Epoxide Adduct
In A Ternary Complex With A Dna Polymerase
pdb|1S0N|A Chain A, Snapshots Of Replication Through An Abasic Lesion:
Structural Basis For Base Substitution And Frameshift
pdb|1S0O|A Chain A, Snapshots Of Replication Through An Abasic Lesion:
Structural Basis For Base Substitution And Frameshift
pdb|1S0O|B Chain B, Snapshots Of Replication Through An Abasic Lesion:
Structural Basis For Base Substitution And Frameshift
pdb|1S10|A Chain A, Snapshots Of Replication Through An Abasic Lesion:
Structural Basis For Base Substitution And Frameshift
pdb|1S97|A Chain A, Dpo4 With Gt Mismatch
pdb|1S97|B Chain B, Dpo4 With Gt Mismatch
pdb|1S97|C Chain C, Dpo4 With Gt Mismatch
pdb|1S97|D Chain D, Dpo4 With Gt Mismatch
pdb|1S9F|A Chain A, Dpo With At Matched
pdb|1S9F|B Chain B, Dpo With At Matched
pdb|1S9F|C Chain C, Dpo With At Matched
pdb|1S9F|D Chain D, Dpo With At Matched
pdb|2IA6|A Chain A, Bypass Of Major Benzopyrene-Dg Adduct By Y-Family Dna
Polymerase With Unique Structural Gap
pdb|2IA6|B Chain B, Bypass Of Major Benzopyrene-Dg Adduct By Y-Family Dna
Polymerase With Unique Structural Gap
pdb|2IBK|A Chain A, Bypass Of Major Benzopyrene-Dg Adduct By Y-Family Dna
Polymerase With Unique Structural Gap
pdb|2RDJ|A Chain A, Snapshots Of A Y-family Dna Polymerase In Replication:
Dpo4 In Apo And Binary/ternary Complex Forms
pdb|2RDJ|B Chain B, Snapshots Of A Y-family Dna Polymerase In Replication:
Dpo4 In Apo And Binary/ternary Complex Forms
pdb|2R8G|A Chain A, Selectivity Of Nucleoside Triphosphate Incorporation
Opposite 1,N2-Propanodeoxyguanosine (Pdg) By The
Sulfolobus Solfataricus Dna Polymerase Dpo4 Polymerase
pdb|2R8H|A Chain A, Selectivity Of Nucleoside Triphosphate Incorporation
Opposite 1,N2- Propanodeoxyguanosine (Pdg) By The
Sulfolobus Solfataricus Dna Polymerase Dpo4 Polymerase
pdb|2R8I|A Chain A, Selectivity Of Nucleoside Triphosphate Incorporation
Opposite 1,N2-Propanodeoxyguanosine (Pdg) By The
Sulfolobus Solfataricus Dna Polymerase Dpo4 Polymerase
pdb|3FDS|A Chain A, Structural Insight Into Recruitment Of Translesion Dna
Polymerase Dpo4 To Sliding Clamp Pcna
pdb|3M9M|B Chain B, Crystal Structure Of Dpo4 In Complex With Dna Containing
The Major Cisplatin Lesion
pdb|3M9N|B Chain B, Crystal Structure Of Dpo4 In Complex With Dna Containing
The Major Cisplatin Lesion
pdb|3M9O|B Chain B, Crystal Structure Of Dpo4 In Complex With Dna Containing
The Major Cisplatin Lesion
Length = 352
Score = 74.3 bits (181), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 62 VEAKKILP--NAVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 123 VHE 125
V +
Sbjct: 115 VRD 117
Score = 51.2 bits (121), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 113 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDE 169
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 170 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISL 228
Query: 297 ARGIDHEPVNARLVSKSIG 315
AR +EP+ R V KSIG
Sbjct: 229 ARDEYNEPIRTR-VRKSIG 246
>pdb|4GC7|A Chain A, Crystal Structure Of Dpo4 In Complex With S-mc-dadp
Opposite Dt
pdb|4GC7|B Chain B, Crystal Structure Of Dpo4 In Complex With S-mc-dadp
Opposite Dt
Length = 359
Score = 74.3 bits (181), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 9 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 68
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 69 VEAKKILP--NAVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 121
Query: 123 VHE 125
V +
Sbjct: 122 VRD 124
Score = 51.2 bits (121), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 120 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDE 176
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 177 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISL 235
Query: 297 ARGIDHEPVNARLVSKSIG 315
AR +EP+ R V KSIG
Sbjct: 236 ARDEYNEPIRTR-VRKSIG 253
>pdb|2UVV|A Chain A, Crystal Structures Of Mutant Dpo4 Dna Polymerases With 8-
Oxog Containing Dna Template-Primer Constructs
pdb|2UVW|A Chain A, Crystal Structures Of Mutant Dpo4 Dna Polymerases With 8-
Oxog Containing Dna Template-Primer Constructs
Length = 358
Score = 74.3 bits (181), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 8 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 67
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 68 VEAKKILP--NAVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 120
Query: 123 VHE 125
V +
Sbjct: 121 VRD 123
Score = 50.8 bits (120), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 119 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDE 175
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 176 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISL 234
Query: 297 ARGIDHEPVNARLVSKSIG 315
AR +EP+ R V KSIG
Sbjct: 235 ARDEYNEPIRTR-VRKSIG 252
>pdb|2W9B|A Chain A, Binary Complex Of Dpo4 Bound To N2,N2-Dimethyl-
Deoxyguanosine Modified Dna
pdb|2W9C|A Chain A, Ternary Complex Of Dpo4 Bound To N2,N2-Dimethyl-
Deoxyguanosine Modified Dna With Incoming Dttp
Length = 358
Score = 74.3 bits (181), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 8 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 67
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 68 VEAKKILP--NAVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 120
Query: 123 VHE 125
V +
Sbjct: 121 VRD 123
Score = 50.8 bits (120), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 119 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDE 175
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 176 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKARYLISL 234
Query: 297 ARGIDHEPVNARLVSKSIG 315
AR +EP+ R V KSIG
Sbjct: 235 ARDEYNEPIRTR-VRKSIG 252
>pdb|3QZ7|A Chain A, T-3 Ternary Complex Of Dpo4
pdb|3QZ8|A Chain A, Tt-4 Ternary Complex Of Dpo4
Length = 360
Score = 73.9 bits (180), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 62 VEAKKILP--NAVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 123 VHE 125
V +
Sbjct: 115 VRD 117
Score = 50.8 bits (120), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 113 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDE 169
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 170 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISL 228
Query: 297 ARGIDHEPVNARLVSKSIG 315
AR +EP+ R V KSIG
Sbjct: 229 ARDEYNEPIRTR-VRKSIG 246
>pdb|2ASD|A Chain A, Oxog-Modified Insertion Ternary Complex
pdb|2ASD|B Chain B, Oxog-Modified Insertion Ternary Complex
pdb|2ASJ|A Chain A, Oxog-Modified Preinsertion Binary Complex
pdb|2ASJ|B Chain B, Oxog-Modified Preinsertion Binary Complex
pdb|2ASL|A Chain A, Oxog-Modified Postinsertion Binary Complex
pdb|2ASL|B Chain B, Oxog-Modified Postinsertion Binary Complex
pdb|2ATL|A Chain A, Unmodified Insertion Ternary Complex
pdb|2ATL|B Chain B, Unmodified Insertion Ternary Complex
pdb|2AU0|A Chain A, Unmodified Preinsertion Binary Complex
pdb|2AU0|B Chain B, Unmodified Preinsertion Binary Complex
Length = 360
Score = 73.9 bits (180), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 10 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 69
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 70 VEAKKILP--NAVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 122
Query: 123 VHE 125
V +
Sbjct: 123 VRD 125
Score = 50.8 bits (120), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 121 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDE 177
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 178 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISL 236
Query: 297 ARGIDHEPVNARLVSKSIG 315
AR +EP+ R V KSIG
Sbjct: 237 ARDEYNEPIRTR-VRKSIG 254
>pdb|3V6H|A Chain A, Replication Of N2,3-Ethenoguanine By Dna Polymerases
pdb|3V6H|B Chain B, Replication Of N2,3-Ethenoguanine By Dna Polymerases
pdb|3V6J|A Chain A, Replication Of N2,3-Ethenoguanine By Dna Polymerases
pdb|3V6J|J Chain J, Replication Of N2,3-Ethenoguanine By Dna Polymerases
Length = 348
Score = 73.9 bits (180), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 8 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 67
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 68 VEAKKILP--NAVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 120
Query: 123 VHE 125
V +
Sbjct: 121 VRD 123
Score = 50.8 bits (120), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 119 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDE 175
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 176 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISL 234
Query: 297 ARGIDHEPVNARLVSKSIG 315
AR +EP+ R V KSIG
Sbjct: 235 ARDEYNEPIRTR-VRKSIG 252
>pdb|3PVX|A Chain A, Binary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-Fapy) With Dna Polymerase Iv
pdb|3PW0|A Chain A, Ternary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-Fapy) With Dna Polymerase Iv And Incoming Datp
pdb|3PW2|A Chain A, Ternary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-Fapy) With Dna Polymerase Iv And Incoming Dttp
pdb|3PW4|A Chain A, Ternary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-N7-Gua) With Dna Polymerase Iv And Incoming Datp
pdb|3PW5|A Chain A, Ternary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-N7-Gua) With Dna Polymerase Iv And Incoming Dttp
pdb|3PW7|A Chain A, Ternary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-N7-Gua) With Dna Polymerase Iv And Incoming Dctp
pdb|3PW7|E Chain E, Ternary Complex Of Aflatoxin B1 Adduct Modified Dna
(Afb1-N7-Gua) With Dna Polymerase Iv And Incoming Dctp
Length = 347
Score = 73.9 bits (180), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 8 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 67
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 68 VEAKKILP--NAVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 120
Query: 123 VHE 125
V +
Sbjct: 121 VRD 123
Score = 50.8 bits (120), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 119 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDE 175
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 176 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISL 234
Query: 297 ARGIDHEPVNARLVSKSIG 315
AR +EP+ R V KSIG
Sbjct: 235 ARDEYNEPIRTR-VRKSIG 252
>pdb|2IMW|P Chain P, Mechanism Of Template-Independent Nucleotide Incorporation
Catalyzed By A Template-Dependent Dna Polymerase
Length = 348
Score = 73.9 bits (180), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 62 VEAKKILP--NAVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 123 VHE 125
V +
Sbjct: 115 VRD 117
Score = 50.8 bits (120), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 113 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDE 169
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 170 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISL 228
Query: 297 ARGIDHEPVNARLVSKSIG 315
AR +EP+ R V KSIG
Sbjct: 229 ARDEYNEPIRTR-VRKSIG 246
>pdb|4F4Z|B Chain B, Y-family Dna Polymerase Chimera Dpo4-dpo4-dbh
pdb|4F4Z|A Chain A, Y-family Dna Polymerase Chimera Dpo4-dpo4-dbh
Length = 361
Score = 73.6 bits (179), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 62 VEAKKILP--NAVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 123 VHE 125
V +
Sbjct: 115 VRD 117
Score = 52.8 bits (125), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 40/148 (27%), Positives = 67/148 (45%), Gaps = 5/148 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 113 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDE 169
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 170 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISL 228
Query: 297 ARGIDHEPVNARLVSKSIGCCKRFPGKT 324
AR +EP+ R V KSIG P T
Sbjct: 229 ARDEYNEPIRTR-VRKSIGRYLTLPYNT 255
>pdb|3V6K|A Chain A, Replication Of N2,3-Ethenoguanine By Dna Polymerases
pdb|3V6K|J Chain J, Replication Of N2,3-Ethenoguanine By Dna Polymerases
Length = 347
Score = 73.6 bits (179), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 7 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 66
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 67 VEAKKILP--NAVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 119
Query: 123 VHE 125
V +
Sbjct: 120 VRD 122
Score = 50.4 bits (119), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 118 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDE 174
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 175 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISL 233
Query: 297 ARGIDHEPVNARLVSKSIG 315
AR +EP+ R V KSIG
Sbjct: 234 ARDEYNEPIRTR-VRKSIG 251
>pdb|1JX4|A Chain A, Crystal Structure Of A Y-Family Dna Polymerase In A
Ternary Complex With Dna Substrates And An Incoming
Nucleotide
Length = 352
Score = 73.2 bits (178), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 45/123 (36%), Positives = 64/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +P + Y+ + +L E+S +E ASIDEAY+D++D
Sbjct: 62 VEAKKILP--NAVYLPXRK-----EVYQQVSSRIXNLLREYSEKIEIASIDEAYLDISDK 114
Query: 123 VHE 125
V +
Sbjct: 115 VRD 117
Score = 49.7 bits (117), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 64/139 (46%), Gaps = 5/139 (3%)
Query: 177 ENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQS 236
+ D++E G+ EI+ +L K + + GI+ NKV AK+ KP ++
Sbjct: 113 DKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADXAKPNGIKVIDDE 169
Query: 237 SVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYI 296
V L L I V +G + E ++ L + +++ +L+ E A +L +
Sbjct: 170 EVKRLIRELDIADVPGIGN-ITAEKLKKLGINKLVDTLSIEFDKLKGXIGEAKAKYLISL 228
Query: 297 ARGIDHEPVNARLVSKSIG 315
AR +EP+ R V KSIG
Sbjct: 229 ARDEYNEPIRTR-VRKSIG 246
>pdb|3GII|A Chain A, Dpo4 Extension Ternary Complex With Disordered A Opposite
An Oxog In Anti Conformation
pdb|3GIJ|A Chain A, Dpo4 Extension Ternary Complex With Oxog(Syn)-A(Anti) And
Oxog(Anti)- A(Syn) Pairs
pdb|3GIJ|B Chain B, Dpo4 Extension Ternary Complex With Oxog(Syn)-A(Anti) And
Oxog(Anti)- A(Syn) Pairs
pdb|3GIK|A Chain A, Dpo4 Extension Ternary Complex With The Oxog(Anti)-C(Anti)
Pair
pdb|3GIL|A Chain A, Dpo4 Extension Ternary Complex With Oxog(Anti)-T(Anti)
Pair
pdb|3GIL|B Chain B, Dpo4 Extension Ternary Complex With Oxog(Anti)-T(Anti)
Pair
pdb|3GIM|A Chain A, Dpo4 Extension Ternary Complex With Oxog(Anti)-G(Syn) Pair
pdb|3KHG|A Chain A, Dpo4 Extension Ternary Complex With Misinserted A Opposite
The 2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHG|B Chain B, Dpo4 Extension Ternary Complex With Misinserted A Opposite
The 2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHH|A Chain A, Dpo4 Extension Ternary Complex With A C Base Opposite The
2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHH|B Chain B, Dpo4 Extension Ternary Complex With A C Base Opposite The
2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHL|A Chain A, Dpo4 Post-Extension Ternary Complex With Misinserted A
Opposite The 2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHL|B Chain B, Dpo4 Post-Extension Ternary Complex With Misinserted A
Opposite The 2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHR|A Chain A, Dpo4 Post-Extension Ternary Complex With The Correct C
Opposite The 2- Aminofluorene-Guanine [af]g Lesion
pdb|3KHR|B Chain B, Dpo4 Post-Extension Ternary Complex With The Correct C
Opposite The 2- Aminofluorene-Guanine [af]g Lesion
pdb|3RAQ|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer C
Base Opposite The 1-Methylguanine (Mg1) Lesion
pdb|3RAQ|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer C
Base Opposite The 1-Methylguanine (Mg1) Lesion
pdb|3RAX|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer T
Base Opposite The 1-Methylguanine (M1g) Lesion
pdb|3RAX|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer T
Base Opposite The 1-Methylguanine (M1g) Lesion
pdb|3RB0|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer G
Base Opposite The 1-Methylguanine (M1g) Lesion
pdb|3RB0|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer G
Base Opposite The 1-Methylguanine (M1g) Lesion
pdb|3RB3|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer A
Base Opposite The 1-Methylguanine (M1g) Lesion
pdb|3RB4|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer G
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RB4|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer G
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RB6|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer A
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RB6|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer A
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RBD|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer C
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RBD|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer C
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RBE|A Chain A, Dpo4 Extension Ternary Complex With 3'-Terminal Primer T
Base Opposite The 3-Methylcytosine (M3c) Lesion
pdb|3RBE|B Chain B, Dpo4 Extension Ternary Complex With 3'-Terminal Primer T
Base Opposite The 3-Methylcytosine (M3c) Lesion
Length = 341
Score = 69.3 bits (168), Expect = 1e-11, Method: Composition-based stats.
Identities = 45/123 (36%), Positives = 64/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +V Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 62 VEAKKILPN-------AVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 123 VHE 125
V +
Sbjct: 115 VRD 117
Score = 50.1 bits (118), Expect = 6e-06, Method: Composition-based stats.
Identities = 38/141 (26%), Positives = 66/141 (46%), Gaps = 5/141 (3%)
Query: 175 LMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILP 234
+ + D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 111 ISDKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVID 167
Query: 235 QSSVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLY 294
V L L I V + G + E ++ L + +++ +L+ E A +L
Sbjct: 168 DEEVKRLIRELDIADVPGI-GNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLI 226
Query: 295 YIARGIDHEPVNARLVSKSIG 315
+AR +EP+ R V KSIG
Sbjct: 227 SLARDEYNEPIRTR-VRKSIG 246
>pdb|2AGO|A Chain A, Fidelity Of Dpo4: Effect Of Metal Ions, Nucleotide
Selection And Pyrophosphorolysis
pdb|2AGP|A Chain A, Fidelity Of Dpo4: Effect Of Metal Ions, Nucleotide
Selection And Pyrophosphorolysis
pdb|2AGP|B Chain B, Fidelity Of Dpo4: Effect Of Metal Ions, Nucleotide
Selection And Pyrophosphorolysis
pdb|2AGQ|A Chain A, Fidelity Of Dpo4: Effect Of Metal Ions, Nucleotide
Selection And Pyrophosphorolysis
pdb|3T5H|A Chain A, Ternary Complex Of Hne Adduct Modified Dna (5'-Cxg-3' Vs
13-Mer) With Dpo4 And Incoming Ddgt
pdb|3T5J|A Chain A, Ternary Complex Of Hne Adduct Modified Dna (5'-Txg-3' Vs
13-Mer) With Dpo4 And Incoming Ddtp
pdb|3T5K|A Chain A, Ternary Complex Of Hne Adduct Modified Dna (5'-Txg-3' Vs
14-Mer) With Dpo4 And Incoming Ddtp
pdb|3T5L|A Chain A, Ternary Complex Of Hne Adduct Modified Dna (5'-Cxg-3' Vs
14-Mer) With Dpo4 And Incoming Ddgt
Length = 341
Score = 69.3 bits (168), Expect = 1e-11, Method: Composition-based stats.
Identities = 45/123 (36%), Positives = 64/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +V Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 62 VEAKKILPN-------AVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 123 VHE 125
V +
Sbjct: 115 VRD 117
Score = 50.1 bits (118), Expect = 6e-06, Method: Composition-based stats.
Identities = 38/141 (26%), Positives = 66/141 (46%), Gaps = 5/141 (3%)
Query: 175 LMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILP 234
+ + D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 111 ISDKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVID 167
Query: 235 QSSVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLY 294
V L L I V + G + E ++ L + +++ +L+ E A +L
Sbjct: 168 DEEVKRLIRELDIADVPGI-GNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLI 226
Query: 295 YIARGIDHEPVNARLVSKSIG 315
+AR +EP+ R V KSIG
Sbjct: 227 SLARDEYNEPIRTR-VRKSIG 246
>pdb|2RDI|A Chain A, Snapshots Of A Y-family Dna Polymerase In Replication:
Dpo4 In Apo And Binary/ternary Complex Forms
Length = 342
Score = 69.3 bits (168), Expect = 1e-11, Method: Composition-based stats.
Identities = 45/123 (36%), Positives = 64/123 (52%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +V Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 62 VEAKKILPN-------AVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 123 VHE 125
V +
Sbjct: 115 VRD 117
Score = 50.1 bits (118), Expect = 6e-06, Method: Composition-based stats.
Identities = 38/141 (26%), Positives = 66/141 (46%), Gaps = 5/141 (3%)
Query: 175 LMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILP 234
+ + D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 111 ISDKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVID 167
Query: 235 QSSVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLY 294
V L L I V + G + E ++ L + +++ +L+ E A +L
Sbjct: 168 DEEVKRLIRELDIADVPGI-GNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLI 226
Query: 295 YIARGIDHEPVNARLVSKSIG 315
+AR +EP+ R V KSIG
Sbjct: 227 SLARDEYNEPIRTR-VRKSIG 246
>pdb|1IM4|A Chain A, Crystal Structure Of A Dinb Homolog (Dbh) Lesion Bypass
Dna Polymerase Catalytic Fragment From Sulfolobus
Solfataricus
Length = 221
Score = 68.6 bits (166), Expect = 2e-11, Method: Composition-based stats.
Identities = 67/261 (25%), Positives = 101/261 (38%), Gaps = 67/261 (25%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYN--TWKGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D F+ QVE LNP GKPL V Y+ T G + NYEAR GV M
Sbjct: 7 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPI 66
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
+A Q P VP + Y ++ +L++ ++ +E ASIDEAY+D+T+
Sbjct: 67 IKAMQIAPSA--IYVPMRK-----PIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNK 119
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF 182
V +N E ARK
Sbjct: 120 VEGNF---------------------ENGIELARK------------------------- 133
Query: 183 QELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY 242
I+ +L K + + G+A NK+LAK++ KP ++ + V
Sbjct: 134 ------------IKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFL 181
Query: 243 ANLSIKKVRHLGGKLGDEVVE 263
L I ++ +G L + E
Sbjct: 182 NELDIDEIPGIGSVLARRLNE 202
>pdb|3PR4|A Chain A, Dpo4 Y12a Mutant Incorporating Dadp Opposite Template Dt
pdb|3PR5|B Chain B, Dpo4 Y12a Mutant Incorporating Adp Opposite Template Dt
Length = 341
Score = 65.9 bits (159), Expect = 1e-10, Method: Composition-based stats.
Identities = 44/123 (35%), Positives = 63/123 (51%), Gaps = 9/123 (7%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTW--KGGGIIAVNYEARHKGVTRHMRG 62
I+ +D D F QVE LNPSL GKP+ V ++ G + NYEAR GV +
Sbjct: 2 IVLFVDFDYFAAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P +V Y+ ++ +L E+S +E ASIDEAY+D++D
Sbjct: 62 VEAKKILPN-------AVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 123 VHE 125
V +
Sbjct: 115 VRD 117
Score = 50.1 bits (118), Expect = 6e-06, Method: Composition-based stats.
Identities = 38/141 (26%), Positives = 66/141 (46%), Gaps = 5/141 (3%)
Query: 175 LMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILP 234
+ + D++E G+ EI+ +L K + + GI+ NKV AK+ + KP ++
Sbjct: 111 ISDKVRDYREAYNLGL---EIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVID 167
Query: 235 QSSVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLY 294
V L L I V + G + E ++ L + +++ +L+ E A +L
Sbjct: 168 DEEVKRLIRELDIADVPGI-GNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLI 226
Query: 295 YIARGIDHEPVNARLVSKSIG 315
+AR +EP+ R V KSIG
Sbjct: 227 SLARDEYNEPIRTR-VRKSIG 246
>pdb|3GQC|A Chain A, Structure Of Human Rev1-Dna-Dntp Ternary Complex
pdb|3GQC|B Chain B, Structure Of Human Rev1-Dna-Dntp Ternary Complex
pdb|3GQC|C Chain C, Structure Of Human Rev1-Dna-Dntp Ternary Complex
pdb|3GQC|D Chain D, Structure Of Human Rev1-Dna-Dntp Ternary Complex
Length = 504
Score = 53.5 bits (127), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 87/407 (21%), Positives = 136/407 (33%), Gaps = 129/407 (31%)
Query: 6 IALIDMDCFYCQVECKLNPSLHGKPLAVV--------------------QY--------- 36
I +DMDCF+ V + P L GKP+AV QY
Sbjct: 90 IMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRAPLRPGANPQLEWQYYQNKILKGK 149
Query: 37 -------NTW------KGGGIIAV---------NYEARHKGVTRHMRGDEAKQHCPEIEL 74
+ W + GI +V +YEAR G+ M AKQ CP ++
Sbjct: 150 AADIPDSSLWENPDSAQANGIDSVLSRAEIASCSYEARQLGIKNGMFFGHAKQLCPNLQ- 208
Query: 75 CRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIA 134
AV +F AY ++ ++E + S H
Sbjct: 209 -----------------------AVPYDF----------HAYKEVAQTLYETLASYTH-- 233
Query: 135 ASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIA-GVIVE 193
N E D +L++ TE E +
Sbjct: 234 ----------------NIEAV--------------SCDEALVDITEILAETKLTPDEFAN 263
Query: 194 EIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLYANLSIKKVRHL 253
+R + +T+ S GI N +LA++ KP Q L V + + +
Sbjct: 264 AVRMEIKDQTKCAASVGIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQLVTNLPGV 323
Query: 254 GGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGIDHEPVNA----RL 309
G + + + +L T +L+ ++ +LQ F KT LY RG+D PV +
Sbjct: 324 GHSM-ESKLASLGIKTCGDLQYMTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKS 382
Query: 310 VSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLEDDLTLNKR 356
VS I RF ++ ++ L++E+ RLE KR
Sbjct: 383 VSAEINYGIRF------TQPKEAEAFLLSLSEEIQRRLEATGMKGKR 423
>pdb|4DEZ|A Chain A, Structure Of Msdpo4
Length = 356
Score = 52.0 bits (123), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 53/197 (26%), Positives = 85/197 (43%), Gaps = 33/197 (16%)
Query: 9 IDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGG--------IIAVNYEARHKGVTRHM 60
+D+D F VE + P L G+P+ V G G + +YEAR GV M
Sbjct: 8 VDLDQFLASVELRRRPDLRGQPVIV------GGSGDPSEPRKVVTCASYEAREFGVHAGM 61
Query: 61 RGDEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYI--D 118
A + CP+ +PS D + Y A +V+ +L + + +E DEAY+ D
Sbjct: 62 PLRAAARRCPDATF--LPS-----DPAAYDEASEQVMGLLRDLGHPLEVWGWDEAYLGAD 114
Query: 119 LTD-----VVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDT 173
L D V ER+++ + A++ + VG +N + A+ A +Y T+
Sbjct: 115 LPDESDPVEVAERIRT---VVAAETGLSCSVGI--SDNKQRAKVATGFAKPAGIYVLTEA 169
Query: 174 SLMENTEDFQELAIAGV 190
+ M D A+ GV
Sbjct: 170 NWMTVMGDRPPDALWGV 186
Score = 46.6 bits (109), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 28/109 (25%), Positives = 50/109 (45%), Gaps = 1/109 (0%)
Query: 191 IVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLYANLSIKKV 250
+ E IR V ++T CS GI+ NK AK+ G KP +L +++ + + +
Sbjct: 124 VAERIRTVVAAETGLSCSVGISDNKQRAKVATGFAKPAGIYVLTEANWMTVMGDRPPDAL 183
Query: 251 RHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARG 299
+G K ++ + +T+ +L L + F T WL +A+G
Sbjct: 184 WGVGPKTTKKLA-AMGITTVADLAVTDPSVLTTAFGPSTGLWLLLLAKG 231
>pdb|2I5O|A Chain A, Solution Structure Of The Ubiquitin-binding Zinc Finger
(ubz) Domain Of The Human Dna Y-polymerase Eta
Length = 39
Score = 33.5 bits (75), Expect = 0.61, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 21/32 (65%)
Query: 945 NIADPTKIICDKCSQPIDINELQEHQDYHFAL 976
++A ++ C+KC + + ++ EH DYHFAL
Sbjct: 3 HMAAEDQVPCEKCGSLVPVWDMPEHMDYHFAL 34
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.312 0.128 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,966,515
Number of Sequences: 62578
Number of extensions: 1186390
Number of successful extensions: 2554
Number of sequences better than 100.0: 59
Number of HSP's better than 100.0 without gapping: 43
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 2373
Number of HSP's gapped (non-prelim): 97
length of query: 1041
length of database: 14,973,337
effective HSP length: 109
effective length of query: 932
effective length of database: 8,152,335
effective search space: 7597976220
effective search space used: 7597976220
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (26.2 bits)