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= 009298
(538 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 187 bits (476), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 105/238 (44%), Positives = 147/238 (61%), Gaps = 9/238 (3%)
Query: 77 GISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQF-VLPNDRMAVMTF 135
G S E+ +E+R + ++ LT SAG+APN +LAKVCSD NKPNGQ+ +LPN R AVM F
Sbjct: 269 GTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPN-RQAVMDF 327
Query: 136 ISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKGSLLCAVFSHSTADFFLSVGLGLGS 195
I LPIRK+ GIGKVTE +L+ GI TC E+ Q+ +LL +FS ++ +FL + LGLGS
Sbjct: 328 IKDLPIRKVSGIGKVTEKMLK-ALGIITCTELYQQRALLSLLFSETSWHYFLHISLGLGS 386
Query: 196 TNTPQARFRKSISSERTFSVTEDKALLYRKLAEIAEMLSADMQKEXXXXXXXXXXXXXAS 255
T+ + RKS+S ERTFS Y E+ L+ D+QKE +
Sbjct: 387 THLTRDGERKSMSVERTFSEINKAEEQYSLCQELCSELAQDLQKERLKGRTVTIKLKNVN 446
Query: 256 FEVRTRAVTLQKYISSSEDILKHASVLLKAEL------PVSLRLIGLRVTQFNEDKVR 307
FEV+TRA T+ +S++E+I A LLK E+ P+ LRL+G+R++ F ++ R
Sbjct: 447 FEVKTRASTVSSVVSTAEEIFAIAKELLKTEIDADFPHPLRLRLMGVRISSFPNEEDR 504
Score = 101 bits (252), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 44/69 (63%), Positives = 53/69 (76%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
ARRFGVRAAMPGFIA++LCP+LI VP +F KY S +++ YDPNFMA SLDEAYL
Sbjct: 125 ARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYL 184
Query: 68 DITEVCRER 76
+IT+ ER
Sbjct: 185 NITKHLEER 193
>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 = 187 bits (476), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 105/238 (44%), Positives = 147/238 (61%), Gaps = 9/238 (3%)
Query: 77 GISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQF-VLPNDRMAVMTF 135
G S E+ +E+R + ++ LT SAG+APN +LAKVCSD NKPNGQ+ +LPN R AVM F
Sbjct: 276 GTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPN-RQAVMDF 334
Query: 136 ISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKGSLLCAVFSHSTADFFLSVGLGLGS 195
I LPIRK+ GIGKVTE +L+ GI TC E+ Q+ +LL +FS ++ +FL + LGLGS
Sbjct: 335 IKDLPIRKVSGIGKVTEKMLK-ALGIITCTELYQQRALLSLLFSETSWHYFLHISLGLGS 393
Query: 196 TNTPQARFRKSISSERTFSVTEDKALLYRKLAEIAEMLSADMQKEXXXXXXXXXXXXXAS 255
T+ + RKS+S ERTFS Y E+ L+ D+QKE +
Sbjct: 394 THLTRDGERKSMSVERTFSEINKAEEQYSLCQELCSELAQDLQKERLKGRTVTIKLKNVN 453
Query: 256 FEVRTRAVTLQKYISSSEDILKHASVLLKAEL------PVSLRLIGLRVTQFNEDKVR 307
FEV+TRA T+ +S++E+I A LLK E+ P+ LRL+G+R++ F ++ R
Sbjct: 454 FEVKTRASTVSSVVSTAEEIFAIAKELLKTEIDADFPHPLRLRLMGVRISSFPNEEDR 511
Score = 101 bits (252), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 44/69 (63%), Positives = 53/69 (76%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
ARRFGVRAAMPGFIA++LCP+LI VP +F KY S +++ YDPNFMA SLDEAYL
Sbjct: 132 ARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYL 191
Query: 68 DITEVCRER 76
+IT+ ER
Sbjct: 192 NITKHLEER 200
>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 = 187 bits (475), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 105/238 (44%), Positives = 147/238 (61%), Gaps = 9/238 (3%)
Query: 77 GISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQF-VLPNDRMAVMTF 135
G S E+ +E+R + ++ LT SAG+APN +LAKVCSD NKPNGQ+ +LPN R AVM F
Sbjct: 220 GTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDKNKPNGQYQILPN-RQAVMDF 278
Query: 136 ISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKGSLLCAVFSHSTADFFLSVGLGLGS 195
I LPIRK+ GIGKVTE +L+ GI TC E+ Q+ +LL +FS ++ +FL + LGLGS
Sbjct: 279 IKDLPIRKVSGIGKVTEKMLK-ALGIITCTELYQQRALLSLLFSETSWHYFLHISLGLGS 337
Query: 196 TNTPQARFRKSISSERTFSVTEDKALLYRKLAEIAEMLSADMQKEXXXXXXXXXXXXXAS 255
T+ + RKS+S ERTFS Y E+ L+ D+QKE +
Sbjct: 338 THLTRDGERKSMSVERTFSEINKAEEQYSLCQELCSELAQDLQKERLKGRTVTIKLKNVN 397
Query: 256 FEVRTRAVTLQKYISSSEDILKHASVLLKAEL------PVSLRLIGLRVTQFNEDKVR 307
FEV+TRA T+ +S++E+I A LLK E+ P+ LRL+G+R++ F ++ R
Sbjct: 398 FEVKTRASTVSSVVSTAEEIFAIAKELLKTEIDADFPHPLRLRLMGVRISSFPNEEDR 455
Score = 101 bits (251), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 44/69 (63%), Positives = 53/69 (76%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
ARRFGVRAAMPGFIA++LCP+LI VP +F KY S +++ YDPNFMA SLDEAYL
Sbjct: 76 ARRFGVRAAMPGFIAKRLCPQLIIVPPNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYL 135
Query: 68 DITEVCRER 76
+IT+ ER
Sbjct: 136 NITKHLEER 144
>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 = 105 bits (263), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 76/229 (33%), Positives = 118/229 (51%), Gaps = 14/229 (6%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+ GV+A MP A ++ P I+VP Y +S+ + K+ AS+DEAYL
Sbjct: 50 ARKLGVKAGMPIIKAMQIAPSAIYVPMRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVL-P 126
D+T +GIE+A +++ + E+ +T + GVAPN++LAK+ +D +KPNG V+ P
Sbjct: 110 DVTNKVEGNFENGIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRP 169
Query: 127 NDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADF 185
+ V F++ L I +I GIG V L + GI ++L K + L + + A +
Sbjct: 170 TE---VQDFLNELDIDEIPGIGSVLARRLNE-LGIQKLRDILSKNYNELEKITGKAKALY 225
Query: 186 FLSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
L L N P + R RKSI T ++ E K L+R + E
Sbjct: 226 LLK--LAQDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 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 = 104 bits (260), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 71/209 (33%), Positives = 109/209 (52%), Gaps = 9/209 (4%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+ GV+A MP A ++ P I+VP Y +S+ + K+ AS+DEAYL
Sbjct: 50 ARKLGVKAGMPIIKAMQIAPSAIYVPMRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVL-P 126
D+T +GIE+A +++ + E+ +T + GVAPN++LAK+ +D +KPNG V+ P
Sbjct: 110 DVTNKVEGNFENGIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRP 169
Query: 127 NDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKG-SLLCAVFSHSTADF 185
+ V F++ L I +I GIG V L + GI ++L K + L + + A +
Sbjct: 170 TE---VQDFLNELDIDEIPGIGSVLARRLNE-LGIQKLRDILSKNYNELEKITGKAKALY 225
Query: 186 FLSVGLGLGSTNTP-QARFRKSISSERTF 213
L L N P + R RKSI T
Sbjct: 226 LLK--LAQDEYNEPIRTRVRKSIGRYLTL 252
>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 = 102 bits (253), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 59/164 (35%), Positives = 92/164 (56%), Gaps = 5/164 (3%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+ GV+A MP A ++ P I+VP Y +S+ + K+ AS+DEAYL
Sbjct: 50 ARKLGVKAGMPIIKAMQIAPSAIYVPMRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVL-P 126
D+T +GIE+A +++ + E+ +T + GVAPN++LAK+ +D +KPNG V+ P
Sbjct: 110 DVTNKVEGNFENGIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRP 169
Query: 127 NDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQK 170
+ V F++ L I +I GIG V L + GI ++L K
Sbjct: 170 TE---VQDFLNELDIDEIPGIGSVLARRLNE-LGIQKLRDILSK 209
>pdb|4F50|A Chain A, Y-family Dna Polymerase Chimera Dbh-dbh-dpo4
Length = 361
Score = 101 bits (252), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 59/164 (35%), Positives = 92/164 (56%), Gaps = 5/164 (3%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+ GV+A MP A ++ P I+VP Y +S+ + K+ AS+DEAYL
Sbjct: 50 ARKLGVKAGMPIIKAMQIAPSAIYVPMRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVL-P 126
D+T +GIE+A +++ + E+ +T + GVAPN++LAK+ +D +KPNG V+ P
Sbjct: 110 DVTNKVEGNFENGIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRP 169
Query: 127 NDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQK 170
+ V F++ L I +I GIG V L + GI ++L K
Sbjct: 170 TE---VQDFLNELDIDEIPGIGSVLARRLNE-LGIQKLRDILSK 209
>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 = 101 bits (252), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 59/164 (35%), Positives = 92/164 (56%), Gaps = 5/164 (3%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+ GV+A MP A ++ P I+VP Y +S+ + K+ AS+DEAYL
Sbjct: 50 ARKLGVKAGMPIIKAMQIAPSAIYVPMRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVL-P 126
D+T +GIE+A +++ + E+ +T + GVAPN++LAK+ +D +KPNG V+ P
Sbjct: 110 DVTNKVEGNFENGIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRP 169
Query: 127 NDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQK 170
+ V F++ L I +I GIG V L + GI ++L K
Sbjct: 170 TE---VQDFLNELDIDEIPGIGSVLARRLNE-LGIQKLRDILSK 209
>pdb|1IM4|A Chain A, Crystal Structure Of A Dinb Homolog (Dbh) Lesion Bypass
Dna Polymerase Catalytic Fragment From Sulfolobus
Solfataricus
Length = 221
Score = 101 bits (251), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 59/164 (35%), Positives = 92/164 (56%), Gaps = 5/164 (3%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+ GV+A MP A ++ P I+VP Y +S+ + K+ AS+DEAYL
Sbjct: 55 ARKLGVKAGMPIIKAMQIAPSAIYVPMRKPIYEAFSNRIMNLLNKHADKIEVASIDEAYL 114
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVL-P 126
D+T +GIE+A +++ + E+ +T + GVAPN++LAK+ +D +KPNG V+ P
Sbjct: 115 DVTNKVEGNFENGIELARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRP 174
Query: 127 NDRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQK 170
+ V F++ L I +I GIG V L + GI ++L K
Sbjct: 175 TE---VQDFLNELDIDEIPGIGSVLARRLNE-LGIQKLRDILSK 214
>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 = 93.2 bits (230), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 55 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 114
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 115 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 173
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 174 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 230
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 231 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 276
>pdb|2IMW|P Chain P, Mechanism Of Template-Independent Nucleotide Incorporation
Catalyzed By A Template-Dependent Dna Polymerase
Length = 348
Score = 92.8 bits (229), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 50 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 110 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 168
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 169 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 225
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 226 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 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 = 92.8 bits (229), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 56 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 115
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 116 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 174
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 175 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 231
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 232 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>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 = 92.8 bits (229), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 50 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 110 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 168
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 169 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 225
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 226 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>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 = 92.8 bits (229), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 50 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 110 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 168
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 169 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 225
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 226 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 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 = 92.8 bits (229), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 56 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 115
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 116 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 174
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 175 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 231
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 232 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 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 = 92.8 bits (229), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 50 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 110 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 168
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 169 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 225
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 226 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>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 = 92.4 bits (228), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 50 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 110 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 168
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 169 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 225
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 226 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>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 = 92.4 bits (228), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 56 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 115
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 116 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 174
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 175 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 231
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 232 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>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 = 92.4 bits (228), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 56 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 115
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 116 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 174
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 175 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 231
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 232 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 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 = 92.4 bits (228), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 50 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 110 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 168
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 169 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 225
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 226 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 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 = 92.4 bits (228), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 57 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 116
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 117 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 175
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 176 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 232
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 233 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 278
>pdb|4DEZ|A Chain A, Structure Of Msdpo4
Length = 356
Score = 92.4 bits (228), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 92/317 (29%), Positives = 139/317 (43%), Gaps = 31/317 (9%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR FGV A MP A + CP+ F+P+D Y S+ + DEAYL
Sbjct: 52 AREFGVHAGMPLRAAARRCPDATFLPSDPAAYDEASEQVMGLLRDLGHPLEVWGWDEAYL 111
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
++ E +E+AE +RT V E GL+CS G++ N+ AKV + KP G +VL
Sbjct: 112 G-ADLPDES--DPVEVAERIRTVVAAETGLSCSVGISDNKQRAKVATGFAKPAGIYVLTE 168
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEM-LQKGSLLCAVFSHSTADFF 186
MT + P + G+G T L GI T ++ + S+L F ST +
Sbjct: 169 ANW--MTVMGDRPPDALWGVGPKTTKKLA-AMGITTVADLAVTDPSVLTTAFGPSTGLWL 225
Query: 187 LSVGLGLGSTN------TPQAR-----FRKSISSERTF-SVTEDKALLYRKLAEIAEMLS 234
L + G G T P++R F + ++ R S D AL + LAEI E
Sbjct: 226 LLLAKGGGDTEVSSEPWVPRSRSHVVTFPQDLTERREMDSAVRDLAL--QTLAEIVE--- 280
Query: 235 ADMQKEXXXXXXXXXXXXXASFEVRTRAVTLQKYISSSEDILKHA-SVLLKAELPVSLRL 293
+ ++F RT+ L + + I+ A +VL + EL +RL
Sbjct: 281 -----QGRIVTRVAVTVRTSTFYTRTKIRKLPAPSTDAGQIVDTALAVLDQFELDRPVRL 335
Query: 294 IGLRVTQFNEDKVRAPS 310
+G+R+ + D V P+
Sbjct: 336 LGVRL-ELAMDDVPRPA 351
>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 = 92.4 bits (228), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 58 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 117
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 118 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 176
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 177 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 233
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 234 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 279
>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 = 92.4 bits (228), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 56 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 115
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 116 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 174
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 175 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 231
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 232 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 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 = 92.0 bits (227), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 50 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 110 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 168
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 169 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 225
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 226 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 271
>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 = 92.0 bits (227), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 67/228 (29%), Positives = 112/228 (49%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 56 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 115
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 116 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 174
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 175 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKARYL 231
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF-----SVTEDKALLYRKLAE 228
+S L N P + R RKSI T ++ E K L+R + E
Sbjct: 232 IS--LARDEYNEPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEE 277
>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 = 90.9 bits (224), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 62/208 (29%), Positives = 103/208 (49%), Gaps = 8/208 (3%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 50 ARKFGVKAGIPIVEAKKILPNAVYLPMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D+ KPNG V+ +
Sbjct: 110 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDD 168
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + + A +
Sbjct: 169 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGMIGEAKAKYL 225
Query: 187 LSVGLGLGSTNTP-QARFRKSISSERTF 213
+S L N P + R RKSI T
Sbjct: 226 IS--LARDEYNEPIRTRVRKSIGRYLTL 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 = 90.1 bits (222), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 66/228 (28%), Positives = 110/228 (48%), Gaps = 13/228 (5%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+FGV+A +P A+K+ P +++P Y S + +Y AS+DEAYL
Sbjct: 50 ARKFGVKAGIPIVEAKKILPNAVYLPXRKEVYQQVSSRIXNLLREYSEKIEIASIDEAYL 109
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DI++ R+ + E++ + E+ +T + G++ N++ AK+ +D KPNG V+ +
Sbjct: 110 DISDKVRDYR-EAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADXAKPNGIKVIDD 168
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFF 186
+ V I L I + GIG +T L+ GIN + L + L + A +
Sbjct: 169 EE--VKRLIRELDIADVPGIGNITAEKLKK-LGINKLVDTLSIEFDKLKGXIGEAKAKYL 225
Query: 187 LSVGLGLGSTNTP-QARFRKSIS-----SERTFSVTEDKALLYRKLAE 228
+S L N P + R RKSI + ++ E K L+R + E
Sbjct: 226 IS--LARDEYNEPIRTRVRKSIGRIVTXKRNSRNLEEIKPYLFRAIEE 271
>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 = 86.3 bits (212), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 71/239 (29%), Positives = 106/239 (44%), Gaps = 11/239 (4%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFVPTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAYL 67
AR+ G++ M A++LCP L VP DF Y + + Y N A S DEA +
Sbjct: 186 ARQLGIKNGMFFGHAKQLCPNLQAVPYDFHAYKEVAQTLYETLASYTHNIEAVSCDEALV 245
Query: 68 DITEVCRERGISGIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPN 127
DITE+ E ++ E A +R + ++ S G+ N LLA++ + KP+GQ+ L
Sbjct: 246 DITEILAETKLTPDEFANAVRMEIKDQTKCAASVGIGSNILLARMATRKAKPDGQYHLKP 305
Query: 128 DRMAVMTFISSLPIRKIGGIGKVTEHILRDVFGINTCEEMLQKGSL--LCAVFSHSTADF 185
+ V FI + + G+G E L + GI TC + LQ ++ L F T
Sbjct: 306 EE--VDDFIRGQLVTNLPGVGHSMESKLASL-GIKTCGD-LQYMTMAKLQKEFGPKTGQM 361
Query: 186 FLSVGLGLGSTNTPQARFRKSISSERTFSV-----TEDKALLYRKLAEIAEMLSADMQK 239
GL + RKS+S+E + + E +A L EI L A K
Sbjct: 362 LYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPKEAEAFLLSLSEEIQRRLEATGMK 420
>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 = 75.1 bits (183), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 59/195 (30%), Positives = 92/195 (47%), Gaps = 38/195 (19%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFV-PTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAY 66
AR+ GV+ M A++ CP+L+ V D T+Y S ++ ++ P DE +
Sbjct: 70 ARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSPVVERLGFDENF 129
Query: 67 LDITEVCRERG---------------------------------ISGIEIAEELRTSVYE 93
+D+TE+ +R + G +IA E+R ++Y
Sbjct: 130 VDLTEMVEKRLQQLQSDELSAVTVSGHVYNNQSINLLDVLHIRLLVGSQIAAEMREAMYN 189
Query: 94 EAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSL-PIRKIGGIGKVTE 152
+ GLT AGVA N+LLAK+ S + KPN Q VL + + I SL I++I GIG T
Sbjct: 190 QLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPE--SCQHLIHSLNHIKEIPGIGYKTA 247
Query: 153 HILRDVFGINTCEEM 167
L + GIN+ ++
Sbjct: 248 KCL-EALGINSVRDL 261
>pdb|3H40|A Chain A, Binary Complex Of Human Dna Polymerase Iota With Template
UT
Length = 389
Score = 75.1 bits (183), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 59/195 (30%), Positives = 92/195 (47%), Gaps = 38/195 (19%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFV-PTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAY 66
AR+ GV+ M A++ CP+L+ V D T+Y S ++ ++ P DE +
Sbjct: 45 ARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSPVVERLGFDENF 104
Query: 67 LDITEVCRERG---------------------------------ISGIEIAEELRTSVYE 93
+D+TE+ +R + G +IA E+R ++Y
Sbjct: 105 VDLTEMVEKRLQQLQSDELSAVTVSGHVYNNQSINLLDVLHIRLLVGSQIAAEMREAMYN 164
Query: 94 EAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSL-PIRKIGGIGKVTE 152
+ GLT AGVA N+LLAK+ S + KPN Q VL + + I SL I++I GIG T
Sbjct: 165 QLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPE--SCQHLIHSLNHIKEIPGIGYKTA 222
Query: 153 HILRDVFGINTCEEM 167
L + GIN+ ++
Sbjct: 223 KCL-EALGINSVRDL 236
>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 = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 59/195 (30%), Positives = 92/195 (47%), Gaps = 38/195 (19%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFV-PTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAY 66
AR+ GV+ M A++ CP+L+ V D T+Y S ++ ++ P DE +
Sbjct: 46 ARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSPVVERLGFDENF 105
Query: 67 LDITEVCRERG---------------------------------ISGIEIAEELRTSVYE 93
+D+TE+ +R + G +IA E+R ++Y
Sbjct: 106 VDLTEMVEKRLQQLQSDELSAVTVSGHVYNNQSINLLDVLHIRLLVGSQIAAEMREAMYN 165
Query: 94 EAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSL-PIRKIGGIGKVTE 152
+ GLT AGVA N+LLAK+ S + KPN Q VL + + I SL I++I GIG T
Sbjct: 166 QLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPE--SCQHLIHSLNHIKEIPGIGYKTA 223
Query: 153 HILRDVFGINTCEEM 167
L + GIN+ ++
Sbjct: 224 KCL-EALGINSVRDL 237
>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 = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 59/195 (30%), Positives = 92/195 (47%), Gaps = 38/195 (19%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFV-PTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAY 66
AR+ GV+ M A++ CP+L+ V D T+Y S ++ ++ P DE +
Sbjct: 44 ARKLGVKKLMNVRDAKEKCPQLVLVNGEDLTRYREMSYKVTELLEEFSPVVERLGFDENF 103
Query: 67 LDITEVCRERG---------------------------------ISGIEIAEELRTSVYE 93
+D+TE+ +R + G +IA E+R ++Y
Sbjct: 104 VDLTEMVEKRLQQLQSDELSAVTVSGHVYNNQSINLLDVLHIRLLVGSQIAAEMREAMYN 163
Query: 94 EAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSL-PIRKIGGIGKVTE 152
+ GLT AGVA N+LLAK+ S + KPN Q VL + + I SL I++I GIG T
Sbjct: 164 QLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPE--SCQHLIHSLNHIKEIPGIGYKTA 221
Query: 153 HILRDVFGINTCEEM 167
L + GIN+ ++
Sbjct: 222 KCL-EALGINSVRDL 235
>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 = 69.7 bits (169), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 59/195 (30%), Positives = 88/195 (45%), Gaps = 38/195 (19%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFV-PTDFTKYTYYSDLTRKVFCKYDPNFMAASLDEAY 66
AR+ GV+ A++ CP+L+ V D T+Y S ++ ++ P DE +
Sbjct: 70 ARKLGVKKLXNVRDAKEKCPQLVLVNGEDLTRYREXSYKVTELLEEFSPVVERLGFDENF 129
Query: 67 LDITE---------------------------------VCRERGISGIEIAEELRTSVYE 93
+D+TE V R + G +IA E R + Y
Sbjct: 130 VDLTEXVEKRLQQLQSDELSAVTVSGHVYNNQSINLLDVLHIRLLVGSQIAAEXREAXYN 189
Query: 94 EAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSL-PIRKIGGIGKVTE 152
+ GLT AGVA N+LLAK+ S + KPN Q VL + + I SL I++I GIG T
Sbjct: 190 QLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPE--SCQHLIHSLNHIKEIPGIGYKTA 247
Query: 153 HILRDVFGINTCEEM 167
L + GIN+ ++
Sbjct: 248 KCL-EALGINSVRDL 261
>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 = 62.8 bits (151), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 39/135 (28%), Positives = 66/135 (48%), Gaps = 3/135 (2%)
Query: 80 GIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSL 139
G I EE+R ++ E G CSAG++ N++LAK+ +NKPN Q ++ + +V S +
Sbjct: 196 GAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHG--SVPQLFSQM 253
Query: 140 PIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFFLSVGLGLGSTNT 198
PIRKI +G + ++ GI E+ Q S L + F + ++ G+
Sbjct: 254 PIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWLYAMCRGIEHDPV 313
Query: 199 PQARFRKSISSERTF 213
+ K+I + F
Sbjct: 314 KPRQLPKTIGCSKNF 328
Score = 45.4 bits (106), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 48/97 (49%), Gaps = 10/97 (10%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFV-------PTDFTKYTYYSDLTRKVFCKYDPNFMAA 60
AR FGV +M A+KLCP+L+ + TKY S ++ ++ A
Sbjct: 57 ARAFGVTRSMWADDAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRF-AVIERA 115
Query: 61 SLDEAYLDITEVCRER--GISGIEIAEELRTSVYEEA 95
S+DEAY+D+T +ER + G I+ +L S Y E
Sbjct: 116 SIDEAYVDLTSAVQERLQKLQGQPISADLLPSTYIEG 152
>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 = 62.8 bits (151), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 39/135 (28%), Positives = 66/135 (48%), Gaps = 3/135 (2%)
Query: 80 GIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSL 139
G I EE+R ++ E G CSAG++ N++LAK+ +NKPN Q ++ + +V S +
Sbjct: 196 GAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTLVSHG--SVPQLFSQM 253
Query: 140 PIRKIGGIGKVTEHILRDVFGINTCEEMLQ-KGSLLCAVFSHSTADFFLSVGLGLGSTNT 198
PIRKI +G + ++ GI E+ Q S L + F + ++ G+
Sbjct: 254 PIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSWLYAMCRGIEHDPV 313
Query: 199 PQARFRKSISSERTF 213
+ K+I + F
Sbjct: 314 KPRQLPKTIGCSKNF 328
Score = 45.1 bits (105), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 48/97 (49%), Gaps = 10/97 (10%)
Query: 8 ARRFGVRAAMPGFIARKLCPELIFV-------PTDFTKYTYYSDLTRKVFCKYDPNFMAA 60
AR FGV +M A+KLCP+L+ + TKY S ++ ++ A
Sbjct: 57 ARAFGVTRSMWADDAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRF-AVIERA 115
Query: 61 SLDEAYLDITEVCRER--GISGIEIAEELRTSVYEEA 95
S+DEAY+D+T +ER + G I+ +L S Y E
Sbjct: 116 SIDEAYVDLTSAVQERLQKLQGQPISADLLPSTYIEG 152
>pdb|1JIH|A Chain A, Yeast Dna Polymerase Eta
pdb|1JIH|B Chain B, Yeast Dna Polymerase Eta
Length = 513
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 38/82 (46%)
Query: 80 GIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSL 139
G ++ + +R S+ + G T S G++ + + K+ S+ KP+ Q ++ ND +
Sbjct: 241 GSQVCKGIRDSIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKF 300
Query: 140 PIRKIGGIGKVTEHILRDVFGI 161
I +G V L DV +
Sbjct: 301 EITSFWTLGGVLGKELIDVLDL 322
>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 = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 38/82 (46%)
Query: 80 GIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSL 139
G ++ + +R S+ + G T S G++ + + K+ S+ KP+ Q ++ ND +
Sbjct: 264 GSQVCKGIRDSIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKF 323
Query: 140 PIRKIGGIGKVTEHILRDVFGI 161
I +G V L DV +
Sbjct: 324 EITSFWTLGGVLGKELIDVLDL 345
>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 = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 38/82 (46%)
Query: 80 GIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSL 139
G ++ + +R S+ + G T S G++ + + K+ S+ KP+ Q ++ ND +
Sbjct: 264 GSQVCKGIRDSIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKF 323
Query: 140 PIRKIGGIGKVTEHILRDVFGI 161
I +G V L DV +
Sbjct: 324 EITSFWTLGGVLGKELIDVLDL 345
>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 = 33.9 bits (76), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 38/82 (46%)
Query: 80 GIEIAEELRTSVYEEAGLTCSAGVAPNRLLAKVCSDINKPNGQFVLPNDRMAVMTFISSL 139
G ++ + +R S+ + G T S G++ + + K+ S+ KP+ Q ++ ND +
Sbjct: 248 GSQVCKGIRDSIKDILGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKF 307
Query: 140 PIRKIGGIGKVTEHILRDVFGI 161
I +G V L DV +
Sbjct: 308 EITSFWTLGGVLGKELIDVLDL 329
>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 = 28.9 bits (63), Expect = 8.6, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 3/34 (8%)
Query: 449 DDYKCSLCGTEMPPSFIEERQEHSDFHLAERLQK 482
D C CG+ +P + + EH D+H A LQK
Sbjct: 8 DQVPCEKCGSLVP---VWDMPEHMDYHFALELQK 38
>pdb|3H8I|A Chain A, The First X-Ray Structure Of A Sulfide:quinone
Oxidoreductase: Insights Into Sulfide Oxidation
Mechanism
pdb|3H8I|B Chain B, The First X-Ray Structure Of A Sulfide:quinone
Oxidoreductase: Insights Into Sulfide Oxidation
Mechanism
pdb|3H8L|A Chain A, The First X-Ray Structure Of A Sulfide:quinone
Oxidoreductase: Insights Into Sulfide Oxidation
Mechanism
pdb|3H8L|B Chain B, The First X-Ray Structure Of A Sulfide:quinone
Oxidoreductase: Insights Into Sulfide Oxidation
Mechanism
Length = 409
Score = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 37/74 (50%), Gaps = 1/74 (1%)
Query: 340 DINDDCLIDDKETSVSLDVSETNNYEFGDPVCDNSLPDLNDENCSFSNKISEVEKIHENE 399
+I + ++D+K ++ D++ G+P NS PDL D+ ++ V ++N
Sbjct: 243 EIREHEIVDEKGNTIPADITILLPPYTGNPALKNSTPDLVDDGGFIPTDLNMVSIKYDN- 301
Query: 400 VSQLLEGNSLVLRQ 413
V + + NS+ + +
Sbjct: 302 VYAVGDANSMTVPK 315
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
0.318 0.134 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,911,473
Number of Sequences: 62578
Number of extensions: 609965
Number of successful extensions: 1275
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 40
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1186
Number of HSP's gapped (non-prelim): 61
length of query: 538
length of database: 14,973,337
effective HSP length: 103
effective length of query: 435
effective length of database: 8,527,803
effective search space: 3709594305
effective search space used: 3709594305
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)