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= 007824
(588 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 = 313 bits (802), Expect = 2e-85, Method: Compositional matrix adjust.
Identities = 177/419 (42%), Positives = 244/419 (58%), Gaps = 20/419 (4%)
Query: 12 RIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGD 71
R++A VD+DCF+VQVEQR+ P LR P AVVQY WKGGG+IAV YEAR +GV RSM D
Sbjct: 10 RVVALVDMDCFFVQVEQRQNPHLRNKPCAVVQYKSWKGGGIIAVSYEARAFGVTRSMWAD 69
Query: 72 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLTDAAE 131
+AK++CP + L QV +RGKA+L+ YR A EV+ I++R ERASIDE Y+DLT A +
Sbjct: 70 DAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFAVIERASIDEAYVDLTSAVQ 129
Query: 132 AMLA--ETPPESLDEVDEEALKSHILGLESKDGNDSKATVK-----EWLCRCDADHR--- 181
L + P S D + ++ G + + K ++ +WL D+
Sbjct: 130 ERLQKLQGQPISADLLPSTYIEGLPQGPTTAEETVQKEGMRKQGLFQWLDSLQIDNLTSP 189
Query: 182 DKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGL 241
D L G +IV E+R + +ET F CSAGI+HNK+LAKLA G+NKP +QT V SV L
Sbjct: 190 DLQLTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGSVPQL 249
Query: 242 LDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGIS 301
+PI+K++ LGGKLG S+ LG+ +G+L +F+E +LQ +G G+WL+ + RGI
Sbjct: 250 FSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWLYAMCRGIE 309
Query: 302 GEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTL 361
+ V+ R LPK+ G K+FPG AL T VQ WL QL +EL ERL D N R+A L
Sbjct: 310 HDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRNDNDRVATQL 369
Query: 362 TLHXXXXXXXXXXXXXXXXXXXCPL-RYGTAKIQEDTFNLFQAGLREFLGSFGVKTQGS 419
+ C L RY K+ D F + + + + G++T+ S
Sbjct: 370 VV----SIRVQGDKRLSSLRRCCALTRYDAHKMSHDAFTVIKN-----MNTSGIQTEWS 419
>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 = 313 bits (801), Expect = 2e-85, Method: Compositional matrix adjust.
Identities = 174/402 (43%), Positives = 236/402 (58%), Gaps = 15/402 (3%)
Query: 12 RIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGD 71
R++A VD+DCF+VQVEQR+ P LR P AVVQY WKGGG+IAV YEAR +GV RSM D
Sbjct: 10 RVVALVDMDCFFVQVEQRQNPHLRNKPCAVVQYKSWKGGGIIAVSYEARAFGVTRSMWAD 69
Query: 72 EAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERASIDEVYLDLTDAAE 131
+AK++CP + L QV +RGKA+L+ YR A EV+ I++R ERASIDE Y+DLT A +
Sbjct: 70 DAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFAVIERASIDEAYVDLTSAVQ 129
Query: 132 AMLA--ETPPESLDEVDEEALKSHILGLESKDGNDSKATVK-----EWLCRCDADHR--- 181
L + P S D + ++ G + + K ++ +WL D+
Sbjct: 130 ERLQKLQGQPISADLLPSTYIEGLPQGPTTAEETVQKEGMRKQGLFQWLDSLQIDNLTSP 189
Query: 182 DKLLACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGL 241
D L G +IV E+R + +ET F CSAGI+HNK+LAKLA G+NKP +QT V SV L
Sbjct: 190 DLQLTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHGSVPQL 249
Query: 242 LDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGIS 301
+PI+K++ LGGKLG S+ LG+ +G+L +F+E +LQ +G G+WL+ + RGI
Sbjct: 250 FSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWLYAMCRGIE 309
Query: 302 GEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTL 361
+ V+ R LPK+ G K+FPG AL T VQ WL QL +EL ERL D N R+A L
Sbjct: 310 HDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRNDNDRVATQL 369
Query: 362 TLHXXXXXXXXXXXXXXXXXXXCPL-RYGTAKIQEDTFNLFQ 402
+ C L RY K+ D F + +
Sbjct: 370 VV----SIRVQGDKRLSSLRRCCALTRYDAHKMSHDAFTVIK 407
>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 = 130 bits (328), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 112/360 (31%), Positives = 167/360 (46%), Gaps = 40/360 (11%)
Query: 6 PDSSGARIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVK 65
P++S +R+I HVDLDCFY QVE P+L+ P V Q ++ YEAR GVK
Sbjct: 23 PNAS-SRVIVHVDLDCFYAQVEMISNPELKDKPLGVQQ-----KYLVVTCNYEARKLGVK 76
Query: 66 RSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILAR-KGRCERASIDEVYL 124
+ M +AKE CPQ+ LV DL+ YR +V +L ER DE ++
Sbjct: 77 KLMNVRDAKEKCPQLVLV------NGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFV 130
Query: 125 DLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKL 184
DLT+ E L + DE+ + H+ +S + D H L
Sbjct: 131 DLTEMVEKRLQQLQS---DELSAVTVSGHVYNNQSIN-------------LLDVLHIRLL 174
Query: 185 LACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDS 244
+ G I E+R + + T AG+A NK+LAKL SG+ KP QQT + S + L+ S
Sbjct: 175 V--GSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHS 232
Query: 245 LP-IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGE 303
L IK++ +G K L+ LG+ +V DL FS L++ G + + ++ G
Sbjct: 233 LNHIKEIPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNS 291
Query: 304 EVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTL 363
V P+S SF + + ++ + +L L R+C Q+ R HT+ L
Sbjct: 292 PVILSGPPQSFSEEDSF---KKCSSEVEAKNKIEELLASLLNRVC----QDGRKPHTVRL 344
>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 = 130 bits (326), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 110/357 (30%), Positives = 164/357 (45%), Gaps = 39/357 (10%)
Query: 9 SGARIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSM 68
+ +R+I HVDLDCFY QVE P+L+ P V Q ++ YEAR GVK+ M
Sbjct: 1 ASSRVIVHVDLDCFYAQVEMISNPELKDKPLGVQQ-----KYLVVTCNYEARKLGVKKLM 55
Query: 69 RGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILAR-KGRCERASIDEVYLDLT 127
+AKE CPQ+ LV DL+ YR +V +L ER DE ++DLT
Sbjct: 56 NVRDAKEKCPQLVLV------NGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLT 109
Query: 128 DAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLAC 187
+ E L + DE+ + H+ +S + D H L+
Sbjct: 110 EMVEKRLQQLQS---DELSAVTVSGHVYNNQSIN-------------LLDVLHIRLLV-- 151
Query: 188 GVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSL-P 246
G I E+R + + T AG+A NK+LAKL SG+ KP QQT + S + L+ SL
Sbjct: 152 GSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNH 211
Query: 247 IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQ 306
IK++ +G K L+ LG+ +V DL FS L++ G + + ++ G V
Sbjct: 212 IKEIPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVI 270
Query: 307 ARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTL 363
P+S SF + + ++ + +L L R+C Q+ R HT+ L
Sbjct: 271 LSGPPQSFSEEDSF---KKCSSEVEAKNKIEELLASLLNRVC----QDGRKPHTVRL 320
>pdb|3H40|A Chain A, Binary Complex Of Human Dna Polymerase Iota With Template
UT
Length = 389
Score = 129 bits (325), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 110/355 (30%), Positives = 163/355 (45%), Gaps = 39/355 (10%)
Query: 11 ARIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRG 70
+R+I HVDLDCFY QVE P+L+ P V Q ++ YEAR GVK+ M
Sbjct: 2 SRVIVHVDLDCFYAQVEMISNPELKDKPLGVQQ-----KYLVVTCNYEARKLGVKKLMNV 56
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILAR-KGRCERASIDEVYLDLTDA 129
+AKE CPQ+ LV DL+ YR +V +L ER DE ++DLT+
Sbjct: 57 RDAKEKCPQLVLV------NGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEM 110
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
E L + DE+ + H+ +S + D H L+ G
Sbjct: 111 VEKRLQQLQS---DELSAVTVSGHVYNNQSIN-------------LLDVLHIRLLV--GS 152
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSL-PIK 248
I E+R + + T AG+A NK+LAKL SG+ KP QQT + S + L+ SL IK
Sbjct: 153 QIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNHIK 212
Query: 249 KMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQAR 308
++ +G K L+ LG+ +V DL FS L++ G + + ++ G V
Sbjct: 213 EIPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILS 271
Query: 309 LLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTL 363
P+S SF + + ++ + +L L R+C Q+ R HT+ L
Sbjct: 272 GPPQSFSEEDSF---KKCSSEVEAKNKIEELLASLLNRVC----QDGRKPHTVRL 319
>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 = 129 bits (325), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 110/355 (30%), Positives = 163/355 (45%), Gaps = 39/355 (10%)
Query: 11 ARIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRG 70
+R+I HVDLDCFY QVE P+L+ P V Q ++ YEAR GVK+ M
Sbjct: 1 SRVIVHVDLDCFYAQVEMISNPELKDKPLGVQQ-----KYLVVTCNYEARKLGVKKLMNV 55
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILAR-KGRCERASIDEVYLDLTDA 129
+AKE CPQ+ LV DL+ YR +V +L ER DE ++DLT+
Sbjct: 56 RDAKEKCPQLVLV------NGEDLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTEM 109
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
E L + DE+ + H+ +S + D H L+ G
Sbjct: 110 VEKRLQQLQS---DELSAVTVSGHVYNNQSIN-------------LLDVLHIRLLV--GS 151
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSL-PIK 248
I E+R + + T AG+A NK+LAKL SG+ KP QQT + S + L+ SL IK
Sbjct: 152 QIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHSLNHIK 211
Query: 249 KMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQAR 308
++ +G K L+ LG+ +V DL FS L++ G + + ++ G V
Sbjct: 212 EIPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNSPVILS 270
Query: 309 LLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTL 363
P+S SF + + ++ + +L L R+C Q+ R HT+ L
Sbjct: 271 GPPQSFSEEDSF---KKCSSEVEAKNKIEELLASLLNRVC----QDGRKPHTVRL 318
>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 = 126 bits (316), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 111/360 (30%), Positives = 164/360 (45%), Gaps = 40/360 (11%)
Query: 6 PDSSGARIIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVK 65
P++S +R+I HVDLDCFY QVE P+L+ P V Q ++ YEAR GVK
Sbjct: 23 PNAS-SRVIVHVDLDCFYAQVEXISNPELKDKPLGVQQ-----KYLVVTCNYEARKLGVK 76
Query: 66 RSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILAR-KGRCERASIDEVYL 124
+ +AKE CPQ+ LV DL+ YR +V +L ER DE ++
Sbjct: 77 KLXNVRDAKEKCPQLVLV------NGEDLTRYREXSYKVTELLEEFSPVVERLGFDENFV 130
Query: 125 DLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKL 184
DLT+ E L + DE+ + H+ +S + D H L
Sbjct: 131 DLTEXVEKRLQQLQS---DELSAVTVSGHVYNNQSIN-------------LLDVLHIRLL 174
Query: 185 LACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDS 244
+ G I E R + T AG+A NK+LAKL SG+ KP QQT + S + L+ S
Sbjct: 175 V--GSQIAAEXREAXYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHLIHS 232
Query: 245 LP-IKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGE 303
L IK++ +G K L+ LG+ +V DL FS L++ G + + ++ G
Sbjct: 233 LNHIKEIPGIGYKTAKCLE-ALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGEDNS 291
Query: 304 EVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRIAHTLTL 363
V P+S SF + + ++ + +L L R+C Q+ R HT+ L
Sbjct: 292 PVILSGPPQSFSEEDSF---KKCSSEVEAKNKIEELLASLLNRVC----QDGRKPHTVRL 344
>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 = 105 bits (262), Expect = 7e-23, Method: Compositional matrix adjust.
Identities = 102/380 (26%), Positives = 167/380 (43%), Gaps = 54/380 (14%)
Query: 14 IAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGDEA 73
I H+D+D FY VE R P+L+ P AV L Y AR +GV+ +M G A
Sbjct: 36 IVHIDMDAFYAAVEMRDNPELKDKPIAV-----GSMSMLSTSNYHARRFGVRAAMPGFIA 90
Query: 74 KEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERA-SIDEVYLDLTDAAE- 131
K +CPQ L+ VP + YR EV ILA A S+DE YL++T E
Sbjct: 91 KRLCPQ--LIIVP-----PNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEE 143
Query: 132 -----------------AMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLC 174
++ + P + ++++ E L E + +D + +
Sbjct: 144 RQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFE-ESPSDVQPPGDPFQV 202
Query: 175 RCDADHRDKLLACGVL-------IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKP 227
+ + ++L V+ +V E+R ++ ++T T SAGIA N MLAK+ S NKP
Sbjct: 203 NFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKP 262
Query: 228 -AQQTTVP-FSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESY 285
Q +P +V + LPI+K+ + GK+ + LG+ T +L + + S
Sbjct: 263 NGQYQILPNRQAVMDFIKDLPIRKVSGI-GKVTEKMLKALGIITCTELY---QQRALLSL 318
Query: 286 GFNTGTWLW--NIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEEL 343
F+ +W + +I+ G+ + G KS R + + + LC+EL
Sbjct: 319 LFSETSWHYFLHISLGLGSTHL------TRDGERKSMSVERTFSEINKAEEQYS-LCQEL 371
Query: 344 SERLCSDLEQNKRIAHTLTL 363
L DL++ + T+T+
Sbjct: 372 CSELAQDLQKERLKGRTVTI 391
>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 = 105 bits (262), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 105/381 (27%), Positives = 170/381 (44%), Gaps = 56/381 (14%)
Query: 14 IAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGDEA 73
I H+D+D FY VE R P+L+ P AV L Y AR +GV+ +M G A
Sbjct: 85 IVHIDMDAFYAAVEMRDNPELKDKPIAV-----GSMSMLSTSNYHARRFGVRAAMPGFIA 139
Query: 74 KEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERA-SIDEVYLDLTDAAE- 131
K +CPQ L+ VP + YR EV ILA A S+DE YL++T E
Sbjct: 140 KRLCPQ--LIIVP-----PNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEE 192
Query: 132 -----------------AMLAETPPESLDEVDE-EALKSHILGLESKDGNDSKATVKEWL 173
++ + P + ++++ E E S +L ES +D + +
Sbjct: 193 RQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEES--PSDVQPPGDPFQ 250
Query: 174 CRCDADHRDKLLACGVL-------IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNK 226
+ + ++L V+ +V E+R ++ ++T T SAGIA N MLAK+ S NK
Sbjct: 251 VNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNK 310
Query: 227 P-AQQTTVP-FSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES 284
P Q +P +V + LPI+K+ + GK+ + LG+ T +L + + S
Sbjct: 311 PNGQYQILPNRQAVMDFIKDLPIRKVSGI-GKVTEKMLKALGIITCTELY---QQRALLS 366
Query: 285 YGFNTGTWLW--NIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
F+ +W + +I+ G+ + G KS R + + + LC+E
Sbjct: 367 LLFSETSWHYFLHISLGLGSTHL------TRDGERKSMSVERTFSEINKAEEQYS-LCQE 419
Query: 343 LSERLCSDLEQNKRIAHTLTL 363
L L DL++ + T+T+
Sbjct: 420 LCSELAQDLQKERLKGRTVTI 440
>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 = 105 bits (261), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 105/381 (27%), Positives = 170/381 (44%), Gaps = 56/381 (14%)
Query: 14 IAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGDEA 73
I H+D+D FY VE R P+L+ P AV L Y AR +GV+ +M G A
Sbjct: 92 IVHIDMDAFYAAVEMRDNPELKDKPIAV-----GSMSMLSTSNYHARRFGVRAAMPGFIA 146
Query: 74 KEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGRCERA-SIDEVYLDLTDAAE- 131
K +CPQ L+ VP + YR EV ILA A S+DE YL++T E
Sbjct: 147 KRLCPQ--LIIVP-----PNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYLNITKHLEE 199
Query: 132 -----------------AMLAETPPESLDEVDE-EALKSHILGLESKDGNDSKATVKEWL 173
++ + P + ++++ E E S +L ES +D + +
Sbjct: 200 RQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEESP--SDVQPPGDPFQ 257
Query: 174 CRCDADHRDKLLACGVL-------IVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNK 226
+ + ++L V+ +V E+R ++ ++T T SAGIA N MLAK+ S NK
Sbjct: 258 VNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNK 317
Query: 227 P-AQQTTVP-FSSVKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQES 284
P Q +P +V + LPI+K+ + GK+ + LG+ T +L + + S
Sbjct: 318 PNGQYQILPNRQAVMDFIKDLPIRKVSGI-GKVTEKMLKALGIITCTELY---QQRALLS 373
Query: 285 YGFNTGTWLW--NIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
F+ +W + +I+ G+ + G KS R + + + LC+E
Sbjct: 374 LLFSETSWHYFLHISLGLGSTHL------TRDGERKSMSVERTFSEINKAEEQYS-LCQE 426
Query: 343 LSERLCSDLEQNKRIAHTLTL 363
L L DL++ + T+T+
Sbjct: 427 LCSELAQDLQKERLKGRTVTI 447
>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 = 95.1 bits (235), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 8 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 67
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 68 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 120
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 121 V----------------RDYREAYNLGLEIKN---------------------------- 136
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 137 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 188
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 189 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 247
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 248 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>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 = 95.1 bits (235), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 8 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 67
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 68 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 120
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 121 V----------------RDYREAYNLGLEIKN---------------------------- 136
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 137 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 188
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 189 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 247
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 248 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>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 = 95.1 bits (235), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 62 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 115 V----------------RDYREAYNLGLEIKN---------------------------- 130
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 131 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 182
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 183 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 241
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 242 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>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 = 95.1 bits (235), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 8 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 67
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 68 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 120
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 121 V----------------RDYREAYNLGLEIKN---------------------------- 136
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 137 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 188
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 189 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 247
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 248 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>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 = 95.1 bits (235), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 62 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 115 V----------------RDYREAYNLGLEIKN---------------------------- 130
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 131 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 182
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 183 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 241
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 242 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>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 = 95.1 bits (235), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 9 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 68
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 69 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 121
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 122 V----------------RDYREAYNLGLEIKN---------------------------- 137
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 138 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 189
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 190 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 248
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 249 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 278
>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 = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 10 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 69
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 70 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 122
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 123 V----------------RDYREAYNLGLEIKN---------------------------- 138
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 139 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 190
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 191 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 249
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 250 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 279
>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 = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 8 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 67
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 68 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 120
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 121 V----------------RDYREAYNLGLEIKN---------------------------- 136
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 137 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 188
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 189 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKARYLISLARDEYNEPIRTRV 247
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 248 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>pdb|2IMW|P Chain P, Mechanism Of Template-Independent Nucleotide Incorporation
Catalyzed By A Template-Dependent Dna Polymerase
Length = 348
Score = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 62 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 115 V----------------RDYREAYNLGLEIKN---------------------------- 130
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 131 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 182
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 183 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 241
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 242 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>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 = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 8 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 67
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 68 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 120
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 121 V----------------RDYREAYNLGLEIKN---------------------------- 136
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 137 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 188
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 189 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 247
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 248 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>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 = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 62 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 115 V----------------RDYREAYNLGLEIKN---------------------------- 130
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 131 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 182
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 183 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 241
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 242 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>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 = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 7 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 66
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 67 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 119
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 120 V----------------RDYREAYNLGLEIKN---------------------------- 135
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 136 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 187
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 188 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 246
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 247 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 276
>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 = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 62 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 115 V----------------RDYREAYNLGLEIKN---------------------------- 130
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 131 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 182
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 183 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 241
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 242 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>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 = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 8 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 67
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 68 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 120
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 121 V----------------RDYREAYNLGLEIKN---------------------------- 136
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 137 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 188
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 189 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 247
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 248 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>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 = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 144/333 (43%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 62 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 115 V----------------RDYREAYNLGLEIKN---------------------------- 130
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 131 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 182
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 183 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 241
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 242 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>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 = 94.4 bits (233), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 84/333 (25%), Positives = 142/333 (42%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 62 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 115 V----------------RDYREAYNLGLEIKN---------------------------- 130
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 131 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 182
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 183 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 241
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ P + V + +L + E
Sbjct: 242 ---RKSIGRYLTLPYNTRDVKVILPYLKKAINE 271
>pdb|1JIH|A Chain A, Yeast Dna Polymerase Eta
pdb|1JIH|B Chain B, Yeast Dna Polymerase Eta
Length = 513
Score = 92.4 bits (228), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 110/424 (25%), Positives = 165/424 (38%), Gaps = 101/424 (23%)
Query: 14 IAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGDEA 73
IAH+D++ F+ QVEQ + + P VQ+N +IAV Y AR YG+ R EA
Sbjct: 26 IAHIDMNAFFAQVEQMRCGLSKEDPVVCVQWN-----SIIAVSYAARKYGISRMDTIQEA 80
Query: 74 KEVCPQIELV---------------------------QVPVARGKADLSSYRNAGSEVVS 106
+ C + + Q+ V K L YR + +
Sbjct: 81 LKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQISVEDHKVSLEPYRRESRKALK 140
Query: 107 ILARKGRC---ERASIDEVYLDLTDAAEAMLAETP----------PESLDEVDEEAL--- 150
I K C ERASIDEV+LDL ML ++L + E +
Sbjct: 141 IF--KSACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGGN 198
Query: 151 ---KSHI---------LGLESKDGN-DSKATVKEWLCRCDADHRDKLLACGVLIVTELRM 197
SH+ L E N + + + +W D +LA G + +R
Sbjct: 199 YDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDW--------DDVILALGSQVCKGIRD 250
Query: 198 QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLD--SLPIKKMKQLGG 255
+ +T S G++ K + KLAS KP QT V + LD I LGG
Sbjct: 251 SIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGG 310
Query: 256 KLGTSLQNELGV--------------TTVGDLLKFSEDKLQES-YGFNTGTW-------- 292
LG L + L + G L +F + K+++S Y +T
Sbjct: 311 VLGKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADL 370
Query: 293 ---LWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCS 349
L+ ++RG G + +R + KS S K+ G ++ ++ WL C EL+ R+
Sbjct: 371 AEKLFKLSRGRYGLPLSSRPVVKSMMSNKNLRG-KSCNSIVDCISWLEVFCAELTSRI-Q 428
Query: 350 DLEQ 353
DLEQ
Sbjct: 429 DLEQ 432
>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 = 92.4 bits (228), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 110/424 (25%), Positives = 165/424 (38%), Gaps = 101/424 (23%)
Query: 14 IAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGDEA 73
IAH+D++ F+ QVEQ + + P VQ+N +IAV Y AR YG+ R EA
Sbjct: 49 IAHIDMNAFFAQVEQMRCGLSKEDPVVCVQWN-----SIIAVSYAARKYGISRMDTIQEA 103
Query: 74 KEVCPQIELV---------------------------QVPVARGKADLSSYRNAGSEVVS 106
+ C + + Q+ V K L YR + +
Sbjct: 104 LKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQISVEDHKVSLEPYRRESRKALK 163
Query: 107 ILARKGRC---ERASIDEVYLDLTDAAEAMLAETP----------PESLDEVDEEAL--- 150
I K C ERASIDEV+LDL ML ++L + E +
Sbjct: 164 IF--KSACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGGN 221
Query: 151 ---KSHI---------LGLESKDGN-DSKATVKEWLCRCDADHRDKLLACGVLIVTELRM 197
SH+ L E N + + + +W D +LA G + +R
Sbjct: 222 YDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDW--------DDVILALGSQVCKGIRD 273
Query: 198 QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLD--SLPIKKMKQLGG 255
+ +T S G++ K + KLAS KP QT V + LD I LGG
Sbjct: 274 SIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGG 333
Query: 256 KLGTSLQNELGV--------------TTVGDLLKFSEDKLQES-YGFNTGTW-------- 292
LG L + L + G L +F + K+++S Y +T
Sbjct: 334 VLGKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADL 393
Query: 293 ---LWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCS 349
L+ ++RG G + +R + KS S K+ G ++ ++ WL C EL+ R+
Sbjct: 394 AEKLFKLSRGRYGLPLSSRPVVKSMMSNKNLRG-KSCNSIVDCISWLEVFCAELTSRI-Q 451
Query: 350 DLEQ 353
DLEQ
Sbjct: 452 DLEQ 455
>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 = 92.4 bits (228), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 110/424 (25%), Positives = 166/424 (39%), Gaps = 101/424 (23%)
Query: 14 IAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGDEA 73
IAH+D++ F+ QVEQ + + P VQ+N +IAV Y AR YG+ R EA
Sbjct: 33 IAHIDMNAFFAQVEQMRCGLSKEDPVVCVQWN-----SIIAVSYAARKYGISRMDTIQEA 87
Query: 74 KEVCPQIELV---------------------------QVPVARGKADLSSYRNAGSEVVS 106
+ C + + Q+ V K L YR + ++
Sbjct: 88 LKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQISVEDHKVSLEPYRRESRKALA 147
Query: 107 ILARKGRC---ERASIDEVYLDLTDAAEAMLAETP----------PESLDEVDEEAL--- 150
I K C ERASIDEV+LDL ML ++L + E +
Sbjct: 148 IF--KWACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGGN 205
Query: 151 ---KSHI---------LGLESKDGN-DSKATVKEWLCRCDADHRDKLLACGVLIVTELRM 197
SH+ L E N + + + +W D +LA G + +R
Sbjct: 206 YDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDW--------DDVILALGSQVCKGIRD 257
Query: 198 QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLD--SLPIKKMKQLGG 255
+ +T S G++ K + KLAS KP QT V + LD I LGG
Sbjct: 258 SIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGG 317
Query: 256 KLGTSLQNELGV--------------TTVGDLLKFSEDKLQES-YGFNTGTW-------- 292
LG L + L + G L +F + K+++S Y +T
Sbjct: 318 VLGKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADL 377
Query: 293 ---LWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCS 349
L+ ++RG G + +R + KS S K+ G ++ ++ WL C EL+ R+
Sbjct: 378 AEKLFKLSRGRYGLPLSSRPVVKSMMSNKNLRG-KSCNSIVDCISWLEVFCAELTSRI-Q 435
Query: 350 DLEQ 353
DLEQ
Sbjct: 436 DLEQ 439
>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 = 92.0 bits (227), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 110/424 (25%), Positives = 165/424 (38%), Gaps = 101/424 (23%)
Query: 14 IAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEARNYGVKRSMRGDEA 73
IAH+D++ F+ QVEQ + + P VQ+N +IAV Y AR YG+ R EA
Sbjct: 49 IAHIDMNAFFAQVEQMRCGLSKEDPVVCVQWN-----SIIAVSYAARKYGISRMDTIQEA 103
Query: 74 KEVCPQIELV---------------------------QVPVARGKADLSSYRNAGSEVVS 106
+ C + + Q+ V K L YR + +
Sbjct: 104 LKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQISVEDHKVSLEPYRRESRKALK 163
Query: 107 ILARKGRC---ERASIDEVYLDLTDAAEAMLAETP----------PESLDEVDEEAL--- 150
I K C ERASIDEV+LDL ML ++L + E +
Sbjct: 164 IF--KSACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIGGN 221
Query: 151 ---KSHI---------LGLESKDGN-DSKATVKEWLCRCDADHRDKLLACGVLIVTELRM 197
SH+ L E N + + + +W D +LA G + +R
Sbjct: 222 YDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDW--------DDVILALGSQVCKGIRD 273
Query: 198 QVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLD--SLPIKKMKQLGG 255
+ +T S G++ K + KLAS KP QT V + LD I LGG
Sbjct: 274 SIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGG 333
Query: 256 KLGTSLQNELGV--------------TTVGDLLKFSEDKLQES-YGFNTGTW-------- 292
LG L + L + G L +F + K+++S Y +T
Sbjct: 334 VLGKELIDVLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADL 393
Query: 293 ---LWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLCEELSERLCS 349
L+ ++RG G + +R + KS S K+ G ++ ++ WL C EL+ R+
Sbjct: 394 AEKLFKLSRGRYGLPLSSRPVVKSMMSNKNLRG-KSCNSIVDCISWLEVFCAELTSRI-Q 451
Query: 350 DLEQ 353
DLEQ
Sbjct: 452 DLEQ 455
>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 = 91.3 bits (225), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 83/333 (24%), Positives = 141/333 (42%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D FY QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P + Y+ S + ++L + E ASIDE YLD++D
Sbjct: 62 VEAKKILPN--AVYLPXRK-----EVYQQVSSRIXNLLREYSEKIEIASIDEAYLDISDK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 115 V----------------RDYREAYNLGLEIKN---------------------------- 130
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ KP + VK L+ L I
Sbjct: 131 --------KILEKEKITVTVGISKNKVFAKIAADXAKPNGIKVIDDEEVKRLIRELDIAD 182
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 183 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGXIGEAKAKYLISLARDEYNEPIRTRV 241
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 242 ---RKSIGRIVTXKRNSRNLEEIKPYLFRAIEE 271
>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 = 90.9 bits (224), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 83/333 (24%), Positives = 143/333 (42%), Gaps = 66/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D F QVE+ P L+G P V ++ ++ G +A YEAR +GVK +
Sbjct: 2 IVLFVDFDYFAAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
EAK++ P V +P+ + Y+ S ++++L + E ASIDE YLD++D
Sbjct: 62 VEAKKILPN--AVYLPMRK-----EVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
+ +++ LGLE K+
Sbjct: 115 V----------------RDYREAYNLGLEIKN---------------------------- 130
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
++L++ + T + GI+ NK+ AK+A+ M KP + VK L+ L I
Sbjct: 131 --------KILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLIRELDIAD 182
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L+ +LG+ + D L DKL+ G +L ++AR E ++ R+
Sbjct: 183 VPGIGNITAEKLK-KLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTRV 241
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 242 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>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 = 88.2 bits (217), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 79/333 (23%), Positives = 145/333 (43%), Gaps = 65/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D F+ QVE+ P+ +G P V Y+ K G +A YEAR GVK M
Sbjct: 2 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
+A ++ P + VP+ + Y + ++++L + + E ASIDE YLD+T+
Sbjct: 62 IKAMQIAPS--AIYVPMRK-----PIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
E GN G+
Sbjct: 115 VE------------------------------GN---------------------FENGI 123
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
+ +++ ++L++ + T + G+A NK+LAK+ + +KP + + V+ L+ L I +
Sbjct: 124 ELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDE 183
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L L NELG+ + D+L + ++L++ G +L +A+ E ++ R+
Sbjct: 184 IPGIGSVLARRL-NELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQDEYNEPIRTRV 242
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ R + + ++ +L + EE
Sbjct: 243 ---RKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 272
>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 = 87.4 bits (215), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 79/333 (23%), Positives = 143/333 (42%), Gaps = 65/333 (19%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D F+ QVE+ P+ +G P V Y+ K G +A YEAR GVK M
Sbjct: 2 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
+A ++ P + VP+ + Y + ++++L + + E ASIDE YLD+T+
Sbjct: 62 IKAMQIAPS--AIYVPMRK-----PIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
E GN G+
Sbjct: 115 VE------------------------------GN---------------------FENGI 123
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
+ +++ ++L++ + T + G+A NK+LAK+ + +KP + + V+ L+ L I +
Sbjct: 124 ELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDE 183
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARL 309
+ +G L L NELG+ + D+L + ++L++ G +L +A+ E ++ R+
Sbjct: 184 IPGIGSVLARRL-NELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQDEYNEPIRTRV 242
Query: 310 LPKSHGSGKSFPGPRALKTVASVQHWLNQLCEE 342
G+ P + V + +L + E
Sbjct: 243 ---RKSIGRYLTLPYNTRDVKVILPYLKKAINE 272
>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 = 86.3 bits (212), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 78/313 (24%), Positives = 138/313 (44%), Gaps = 65/313 (20%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D F+ QVE+ P+ +G P V Y+ K G +A YEAR GVK M
Sbjct: 2 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
+A ++ P + VP+ + Y + ++++L + + E ASIDE YLD+T+
Sbjct: 62 IKAMQIAPS--AIYVPMRK-----PIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
E GN G+
Sbjct: 115 VE------------------------------GN---------------------FENGI 123
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
+ +++ ++L++ + T + G+A NK+LAK+ + +KP + + V+ L+ L I +
Sbjct: 124 ELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDE 183
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQAR- 308
+ +G L L NELG+ + D+L + ++L++ G +L +A+ E V+ +
Sbjct: 184 IPGIGSVLARRL-NELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYSEPVENKS 242
Query: 309 LLPKSHGSGKSFP 321
+P HG + P
Sbjct: 243 KIP--HGRYLTLP 253
>pdb|4F50|A Chain A, Y-family Dna Polymerase Chimera Dbh-dbh-dpo4
Length = 361
Score = 85.9 bits (211), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 74/299 (24%), Positives = 132/299 (44%), Gaps = 62/299 (20%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D F+ QVE+ P+ +G P V Y+ K G +A YEAR GVK M
Sbjct: 2 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
+A ++ P + VP+ + Y + ++++L + + E ASIDE YLD+T+
Sbjct: 62 IKAMQIAPS--AIYVPMRK-----PIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
E GN G+
Sbjct: 115 VE------------------------------GN---------------------FENGI 123
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
+ +++ ++L++ + T + G+A NK+LAK+ + +KP + + V+ L+ L I +
Sbjct: 124 ELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDE 183
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQAR 308
+ +G L L NELG+ + D+L + ++L++ G +L +A+ E V+ +
Sbjct: 184 IPGIGSVLARRL-NELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYSEPVENK 241
>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 = 85.5 bits (210), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 78/313 (24%), Positives = 138/313 (44%), Gaps = 65/313 (20%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D F+ QVE+ P+ +G P V Y+ K G +A YEAR GVK M
Sbjct: 2 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVSVYSGRTKTSGAVATANYEARKLGVKAGMPI 61
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
+A ++ P + VP+ + Y + ++++L + + E ASIDE YLD+T+
Sbjct: 62 IKAMQIAPS--AIYVPMRK-----PIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNK 114
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
E GN G+
Sbjct: 115 VE------------------------------GN---------------------FENGI 123
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
+ +++ ++L++ + T + G+A NK+LAK+ + +KP + + V+ L+ L I +
Sbjct: 124 ELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDE 183
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQAR- 308
+ +G L L NELG+ + D+L + ++L++ G +L +A+ E V+ +
Sbjct: 184 IPGIGSVLARRL-NELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKYSEPVENKS 242
Query: 309 LLPKSHGSGKSFP 321
+P HG + P
Sbjct: 243 KIP--HGRYLTLP 253
>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 = 82.8 bits (203), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 95/400 (23%), Positives = 147/400 (36%), Gaps = 121/400 (30%)
Query: 14 IAHVDLDCFYVQVEQRKQPKLRGLPTAVV--------------------QYNEWK----- 48
I HVD+DCF+V V R +P L+G P AV QY + K
Sbjct: 90 IMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRAPLRPGANPQLEWQYYQNKILKGK 149
Query: 49 -----------------GGGLIAV---------GYEARNYGVKRSMRGDEAKEVCPQIEL 82
G+ +V YEAR G+K M AK++CP ++
Sbjct: 150 AADIPDSSLWENPDSAQANGIDSVLSRAEIASCSYEARQLGIKNGMFFGHAKQLCPNLQA 209
Query: 83 VQVPVARGKADLSSYRNAGSEVVSILAR-KGRCERASIDEVYLDLTDAAEAMLAETPPES 141
V D +Y+ + LA E S DE +D+T+ +LAET
Sbjct: 210 VPY-------DFHAYKEVAQTLYETLASYTHNIEAVSCDEALVDITE----ILAET---- 254
Query: 142 LDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGVLIVTELRMQVLK 201
K T E+ +RM++
Sbjct: 255 ------------------------KLTPDEF-------------------ANAVRMEIKD 271
Query: 202 ETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKKMKQLGGKLGTSL 261
+T+ S GI N +LA++A+ KP Q + V + + + +G + + L
Sbjct: 272 QTKCAASVGIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQLVTNLPGVGHSMESKL 331
Query: 262 QNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGS----G 317
+ LG+ T GDL + KLQ+ +G TG L+ RG+ V+ KS + G
Sbjct: 332 AS-LGIKTCGDLQYMTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYG 390
Query: 318 KSFPGPRALKTVASVQHWLNQLCEELSERLCSDLEQNKRI 357
F P+ + +L L EE+ RL + + KR+
Sbjct: 391 IRFTQPK------EAEAFLLSLSEEIQRRLEATGMKGKRL 424
>pdb|4DEZ|A Chain A, Structure Of Msdpo4
Length = 356
Score = 82.4 bits (202), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 85/318 (26%), Positives = 123/318 (38%), Gaps = 78/318 (24%)
Query: 14 IAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYNEWKGGG--------LIAVGYEARNYGVK 65
+ HVDLD F VE R++P LRG P V G G + YEAR +GV
Sbjct: 5 VLHVDLDQFLASVELRRRPDLRGQPVIV------GGSGDPSEPRKVVTCASYEAREFGVH 58
Query: 66 RSMRGDEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKGR-CERASIDEVYL 124
M A CP + +D ++Y A +V+ +L G E DE YL
Sbjct: 59 AGMPLRAAARRCPDATFL-------PSDPAAYDEASEQVMGLLRDLGHPLEVWGWDEAYL 111
Query: 125 DLTDAAEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKL 184
A+ P ES D V+
Sbjct: 112 G---------ADLPDES-DPVE-------------------------------------- 123
Query: 185 LACGVLIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDS 244
+ +R V ET +CS GI+ NK AK+A+G KPA + ++ ++
Sbjct: 124 ------VAERIRTVVAAETGLSCSVGISDNKQRAKVATGFAKPAGIYVLTEANWMTVMGD 177
Query: 245 LPIKKMKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEE 304
P + +G K L +G+TTV DL L ++G +TG WL +A+G E
Sbjct: 178 RPPDALWGVGPKTTKKLAA-MGITTVADLAVTDPSVLTTAFGPSTGLWLLLLAKGGGDTE 236
Query: 305 VQAR-LLPKSHGSGKSFP 321
V + +P+S +FP
Sbjct: 237 VSSEPWVPRSRSHVVTFP 254
>pdb|1IM4|A Chain A, Crystal Structure Of A Dinb Homolog (Dbh) Lesion Bypass
Dna Polymerase Catalytic Fragment From Sulfolobus
Solfataricus
Length = 221
Score = 80.1 bits (196), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 69/274 (25%), Positives = 122/274 (44%), Gaps = 62/274 (22%)
Query: 13 IIAHVDLDCFYVQVEQRKQPKLRGLPTAVVQYN-EWKGGGLIAVG-YEARNYGVKRSMRG 70
I+ VD D F+ QVE+ P+ +G P V Y+ K G +A YEAR GVK M
Sbjct: 7 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPI 66
Query: 71 DEAKEVCPQIELVQVPVARGKADLSSYRNAGSEVVSILARKG-RCERASIDEVYLDLTDA 129
+A ++ P + VP+ + Y + ++++L + + E ASIDE YLD+T+
Sbjct: 67 IKAMQIAPS--AIYVPMRK-----PIYEAFSNRIMNLLNKHADKIEVASIDEAYLDVTNK 119
Query: 130 AEAMLAETPPESLDEVDEEALKSHILGLESKDGNDSKATVKEWLCRCDADHRDKLLACGV 189
E GN G+
Sbjct: 120 VE------------------------------GN---------------------FENGI 128
Query: 190 LIVTELRMQVLKETEFTCSAGIAHNKMLAKLASGMNKPAQQTTVPFSSVKGLLDSLPIKK 249
+ +++ ++L++ + T + G+A NK+LAK+ + +KP + + V+ L+ L I +
Sbjct: 129 ELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDE 188
Query: 250 MKQLGGKLGTSLQNELGVTTVGDLLKFSEDKLQE 283
+ +G L L NELG+ + D+L + ++L++
Sbjct: 189 IPGIGSVLARRL-NELGIQKLRDILSKNYNELEK 221
>pdb|2AQ4|A Chain A, Ternary Complex Of The Catalytic Core Of Rev1 With Dna And
Dctp.
pdb|3BJY|A Chain A, Catalytic Core Of Rev1 In Complex With Dna (Modified
Template Guanine) And Incoming Nucleotide
pdb|3OSP|A Chain A, Structure Of Rev1
Length = 434
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 44/97 (45%), Gaps = 21/97 (21%)
Query: 13 IIAHVDLDCFYVQV------------EQRKQPKLRGLPTAVVQYNEWKGGGLIAVGYEAR 60
II H+D DCF+ V + ++ P +V + K + + Y AR
Sbjct: 53 IIFHIDFDCFFATVAYLCRSSSFSACDFKRDP--------IVVCHGTKNSDIASCNYVAR 104
Query: 61 NYGVKRSMRGDEAKEVCPQ-IELVQVPVARGKADLSS 96
+YG+K M +A+++ P I+L+ +P + L S
Sbjct: 105 SYGIKNGMWVSQAEKMLPNGIKLISLPYTFEQFQLKS 141
>pdb|3KFU|E Chain E, Crystal Structure Of The Transamidosome
pdb|3KFU|H Chain H, Crystal Structure Of The Transamidosome
Length = 471
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 5/73 (6%)
Query: 408 FLGSFGVKTQGSHYSGWRITALSVSASKIVPV---LSGTCSIMKYFNGPDKFGSTSEQLP 464
F G +G+K S + + A + S +I P+ + +M GPD +TS LP
Sbjct: 172 FCGVYGLKPTYGRVSRFGLIAYASSLDQIGPMARSVRDLALLMDAAAGPDPLDATSLDLP 231
Query: 465 DNFIDA--APLSP 475
F +A PL P
Sbjct: 232 PRFQEALEGPLPP 244
>pdb|2FFK|A Chain A, Solution Structure Of The Complex Between Poxvirus-Encoded
Cc Chemokine Inhibitor Vcci And Human Mip-1beta,
Minimized Average Structure
pdb|2FIN|A Chain A, Solution Structure Of The Complex Between Poxvirus-Encoded
Cc Chemokine Inhibitor Vcci And Human Mip-1beta,
Ensemble Structure
Length = 242
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 35/77 (45%), Gaps = 5/77 (6%)
Query: 281 LQESYGFNTGTWLWNIARGISGEEVQARLLPKSHGSGKSFPGPRALKTVASVQHWLNQLC 340
L+ ++GF + +I+ G V ARL S G GK P + +A ++ C
Sbjct: 88 LRMNFGFTKCPQIKSISESADGNTVNARLSSVSPGQGKDSPAITHEEALAMIKD-----C 142
Query: 341 EELSERLCSDLEQNKRI 357
E + CS+ E++ I
Sbjct: 143 EVSIDIRCSEEEKDSDI 159
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 5/56 (8%)
Query: 220 LASGMNKPAQQTTV----PFSS-VKGLLDSLPIKKMKQLGGKLGTSLQNELGVTTV 270
LA+G+N PA+ + F+ + G D +PI + KQ+ G+ G +++G + V
Sbjct: 348 LAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIGESIV 403
>pdb|2X1I|A Chain A, Glycoside Hydrolase Family 77 4-Alpha-Glucanotransferase
From Thermus Brockianus
Length = 500
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 28/63 (44%)
Query: 256 KLGTSLQNELGVTTVGDLLKFSEDKLQESYGFNTGTWLWNIARGISGEEVQARLLPKSHG 315
+LG + + L V V D+L + G +G W W + G EE RLL +
Sbjct: 437 RLGMASRARLAVYPVQDVLALGSEARMNYPGRPSGNWAWRLRPGEIKEEHGERLLSLAEA 496
Query: 316 SGK 318
+G+
Sbjct: 497 TGR 499
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
0.314 0.130 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,930,332
Number of Sequences: 62578
Number of extensions: 683011
Number of successful extensions: 1755
Number of sequences better than 100.0: 49
Number of HSP's better than 100.0 without gapping: 41
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1571
Number of HSP's gapped (non-prelim): 91
length of query: 588
length of database: 14,973,337
effective HSP length: 104
effective length of query: 484
effective length of database: 8,465,225
effective search space: 4097168900
effective search space used: 4097168900
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 54 (25.4 bits)