DNA polymerase 3D structures

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*DNA polymerase III subunit alpha
*DNA polymerase III subunit alpha
-
**[[2hnh]], [[2hqa]] - EcDpo III subunit catalytic fragment<br />
+
**[[2hnh]], [[2hqa]] - EcDpo III subunit alpha catalytic fragment<br />
-
**[[4jom]] - EcDpo III subunit catalytic fragment (mutant)<br />
+
**[[4jom]] - EcDpo III alpha subunit catalytic fragment (mutant)<br />
**[[5m1s]], [[5fkw]], [[5fkv]], [[5fku]] - EcDpo III (mutant) subunits + DNA – Cryo EM<br />
**[[5m1s]], [[5fkw]], [[5fkv]], [[5fku]] - EcDpo III (mutant) subunits + DNA – Cryo EM<br />
**[[1ok7]] - EcDpo III residues 1-366 + EcDpo IV C-terminal<br />
**[[1ok7]] - EcDpo III residues 1-366 + EcDpo IV C-terminal<br />
-
**[[2hpi]], [[2hpm]] - TaDpo III subunit<br />
+
**[[2hpi]], [[2hpm]] - TaDpo III alpha subunit<br />
-
**[[3e0d]] - TaDpo III subunit + DNA<br />
+
**[[3e0d]] - TaDpo III alpha subunit + DNA<br />
-
**[[3f2b]], [[3f2c]], [[3f2d]], [[4iqj]] – GkDpo III subunit + DNA + nucleotide <br />
+
**[[3f2b]], [[3f2c]], [[3f2d]], [[4iqj]] – GkDpo III alpha subunit + DNA + nucleotide <br />
-
**[[1zd7]], [[1zde]], [[3nzm]], [[5ol5]], [[5ol1]] - SyDpo III subunit – Synechocystis<br />
+
**[[1zd7]], [[1zde]], [[3nzm]], [[5ol5]], [[5ol1]] - SyDpo III alpha subunit – Synechocystis<br />
-
**[[4gig]] - SyDpo III subunit (mutant) <br />
+
**[[4gig]] - SyDpo III alpha subunit (mutant) <br />
-
**[[2keq]], [[4kl5]], [[4kl6]] - NpDpo III subunit – Nostoc punctiforme<br />
+
**[[2keq]], [[4kl5]], [[4kl6]] - NpDpo III alpha subunit – Nostoc punctiforme<br />
-
**[[4lx3]], [[4qfq]] - NpDpo III subunit + nucleic acid binding tRNA/helicase<br />
+
**[[4lx3]], [[4qfq]] - NpDpo III alpha subunit + nucleic acid binding tRNA/helicase<br />
-
**[[5lew]] - MtPol III subunit – Mycobacterrium tuberculosis<br />
+
**[[5lew]] - MtPol III alpha subunit – Mycobacterrium tuberculosis<br />
-
**[[7pu7]] - MtDpo III subunit + DNA<br />
+
**[[7pu7]] - MtDpo III alpha subunit + DNA<br />
*DNA polymerase III subunit beta or sliding clamp
*DNA polymerase III subunit beta or sliding clamp
-
**[[1mmi]], [[2pol]], [[4k3s]], [[4pnv]], [[4pnw]] - EcDpo III subunit <br />
+
**[[1mmi]], [[2pol]], [[4k3s]], [[4pnv]], [[4pnw]] - EcDpo III subunit beta<br />
-
**[[2xur]], [[3f1v]], [[3pwe]] - EcDpo III subunit (mutant) <br />
+
**[[2xur]], [[3f1v]], [[3pwe]] - EcDpo III subunit beta (mutant) <br />
-
**[[3d1e]] - EcDpo III subunit + EcDpo II C-terminal<br />
+
**[[3d1e]] - EcDpo III subunit beta + EcDpo II C-terminal<br />
-
**[[1unn]] - EcDpo III subunit + EcDpo IV little finger<br />
+
**[[1unn]] - EcDpo III subunit beta + EcDpo IV little finger<br />
-
**[[2avt]] - Dpo III subunit – Streptococcus pyogenes<br />
+
**[[2avt]] - Dpo III beta subunit – ''Streptococcus pyogenes''<br />
-
**[[2awa]] - Dpo III subunit – Streptococcus pneumoniae<br />
+
**[[2awa]] - Dpo III beta subunit – ''Streptococcus pneumoniae''<br />
-
**[[4trt]] – DrDpo III subunit – Deinococcus radiodurans<br />
+
**[[4trt]] – DrDpo III beta subunit – ''Deinococcus radiodurans''<br />
-
**[[2p1j]] – TmDpo III exonuclease domain – Thermotoga maritima<br />
+
**[[2p1j]] – TmDpo III exonuclease domain – ''Thermotoga maritima''<br />
-
**[[1vpk]] - TmDpo III subunit<br />
+
**[[1vpk]] - TmDpo III beta subunit<br />
-
**[[3t0p]] - Dpo III subunit – Eubacterium rectale<br />
+
**[[3t0p]] - Dpo III beta subunit – ''Eubacterium rectale''<br />
-
**[[6ap4]] - Dpo III subunit – Acinetobacter baumannii<br />
+
**[[6ap4]] - Dpo III beta subunit – ''Acinetobacter baumannii''<br />
-
**[[6amq]] - Dpo III subunit – Enterobacter cloacae<br />
+
**[[6amq]] - Dpo III beta subunit – ''Enterobacter cloacae''<br />
-
**[[5wyp]], [[5wce]], [[6izo]], [[6jir]] - Dpo III subunit – Caulobacter crescentus<br />
+
**[[5wyp]], [[5wce]], [[6izo]], [[6jir]] - Dpo III beta subunit – ''Caulobacter crescentus''<br />
-
**[[5w7z]] - RcDpo III subunit – Rickettsia conorii<br />
+
**[[5w7z]] - RcDpo III beta subunit – ''Rickettsia conorii''<br />
-
**[[6man]] - Dpo III subunit – Rickettsia bellii<br />
+
**[[6man]] - Dpo III beta subunit – ''Rickettsia bellii''<br />
-
**[[6d46]] - RtDpo III subunit – Rickettsia typhi<br />
+
**[[6d46]] - RtDpo III beta subunit – ''Rickettsia typhi''<br />
-
**[[6dlk]] - RrDpo III subunit – Rickettsia rickettsii<br />
+
**[[6dlk]] - RrDpo III beta subunit – ''Rickettsia rickettsii''<br />
-
**[[6d47]] - MmDpo III subunit – Mycobacterium marinum<br />
+
**[[6d47]] - MmDpo III beta subunit – ''Mycobacterium marinum''<br />
**[[1jqj]], [[1jql]] - EcDpo III subunit (mutant) <br />
**[[1jqj]], [[1jql]] - EcDpo III subunit (mutant) <br />
-
**[[4tr6]] - Pol III subunit – Bacillus subtilis<br />
+
**[[4tr6]] - Pol III beta subunit – Bacillus subtilis<br />
-
**[[3p16]], [[3rb9]], [[4tr7]] - MtPol III subunit <br />
+
**[[3p16]], [[3rb9]], [[4tr7]] - MtPol III beta subunit <br />
-
**[[4tr8]], [[6ams]] - PsaPol III subunit – Pseudomonas aeruginosa<br />
+
**[[4tr8]], [[6ams]] - PsaPol III beta subunit –'' Pseudomonas aeruginosa''<br />
-
**[[6pth]] - PsaPol III subunit + griselimycin<br />
+
**[[6pth]] - PsaPol III beta subunit + griselimycin<br />
-
**[[4s3i]], [[4rki]] - HpPol III subunit – Helicobacter pylori<br />
+
**[[4s3i]], [[4rki]] - HpPol III beta subunit – ''Helicobacter pylori''<br />
-
**[[6aig]] - Dpo III subunit – Aeropyrum pernix<br />
+
**[[6aig]] - Dpo III beta subunit – ''Aeropyrum pernix''<br />
-
**[[6deg]] - BbDpo III subunit – Bartonella birtlesii<br />
+
**[[6deg]] - BbDpo III beta subunit – ''Bartonella birtlesii''<br />
-
**[[7rzm]] - Dpo III subunit – Stenotrophomonas maltophilia<br />
+
**[[7rzm]] - Dpo III beta subunit – ''Stenotrophomonas maltophilia''<br />
-
**[[8dt6]] - Dpo III subunit – Elizabethkingia anophelis<br />
+
**[[8dt6]] - Dpo III beta subunit – ''Elizabethkingia anophelis''<br />
*DNA polymerase III subunit beta or sliding clamp complex
*DNA polymerase III subunit beta or sliding clamp complex
-
**[[3d1g]], [[3qsb]], [[4k3k]], [[4k3l]], [[4mjp]], [[4mjq]], [[4mjr]], [[4n94]], [[4n95]], [[4n96]], [[4n97]], [[4n98]], [[4n99]], [[4n9a]], [[4ovf]], [[4ovg]], [[4ovh]], [[4pnu ]] - EcDpo III subunit + inhibitor<br />
+
**[[3d1g]], [[3qsb]], [[4k3k]], [[4k3l]], [[4mjp]], [[4mjq]], [[4mjr]], [[4n94]], [[4n95]], [[4n96]], [[4n97]], [[4n98]], [[4n99]], [[4n9a]], [[4ovf]], [[4ovg]], [[4ovh]], [[4pnu ]] - EcDpo III subunit beta + inhibitor<br />
-
**[[3bep]] - EcDpo III subunit + DNA<br />
+
**[[3bep]] - EcDpo III subunit beta + DNA<br />
-
**[[5x06]] - EcDpo III subunit + DnaA regulatory inactivator<br />
+
**[[5x06]] - EcDpo III subunit beta + DnaA regulatory inactivator<br />
-
**[[3d1f]], [[3q4j]], [[3q4k]], [[3q4l]], [[4k3l]], [[4k3m]], [[4k3o]], [[4k3p]], [[4k3q]], [[4k3r]], [[4k74]], [[6fvl]], [[7az5]], [[7az6]], [[7az7]], [[7az8]], [[7azc]], [[7azd]], [[7aze]], [[7azf]], [[7azg]], [[7azk]], [[7azl]] - EcDpo III subunit + polypeptide<br />
+
**[[3d1f]], [[3q4j]], [[3q4k]], [[3q4l]], [[4k3l]], [[4k3m]], [[4k3o]], [[4k3p]], [[4k3q]], [[4k3r]], [[4k74]], [[6fvl]], [[7az5]], [[7az6]], [[7az7]], [[7az8]], [[7azc]], [[7azd]], [[7aze]], [[7azf]], [[7azg]], [[7azk]], [[7azl]] - EcDpo III beta subunit + polypeptide<br />
-
**[[6fvm]] - EcDpo III subunit (mutant) + P7 peptide<br />
+
**[[6fvm]] - EcDpo III beta subunit (mutant) + P7 peptide<br />
-
**[[5g4q]], [[5g48]], [[5fxt]], [[5fve]] - HpPol III subunit + NSAID drug <br />
+
**[[5g4q]], [[5g48]], [[5fxt]], [[5fve]] - HpPol III beta subunit + NSAID drug <br />
-
**[[5frq]] - HpPol III subunit + DNA ligase peptide<br />
+
**[[5frq]] - HpPol III beta subunit + DNA ligase peptide<br />
-
**[[5dai]] - TkPol III subunit + FEN-1 peptide <br />
+
**[[5dai]] - TkPol III beta subunit + FEN-1 peptide <br />
-
**[[5ah4]], [[5ah2]], [[5agv]], [[5agu]] – MsPol III subunit + gricelimycin <br />
+
**[[5ah4]], [[5ah2]], [[5agv]], [[5agu]] – MsPol III beta subunit + gricelimycin <br />
-
**[[6drt]] – T4Dpo III subunit + polypeptide - Enterobacteria phage T4<br />
+
**[[6drt]] – T4Dpo III beta subunit + polypeptide - Enterobacteria phage T4<br />
-
**[[6dj8]] – Dpo III subunit + polypeptide – Borrelia burgdorferi<br />
+
**[[6dj8]] – Dpo III beta subunit + polypeptide – ''Borrelia burgdorferi''<br />
-
**[[6fvo]], [[6fvn]] - MtPol III subunit + P7 peptide<br />
+
**[[6fvo]], [[6fvn]] - MtPol III beta subunit + P7 peptide<br />
-
**[[6t7x]] - PaPol III subunit <br />
+
**[[6t7x]] - PaPol III beta subunit <br />
-
**[[4tsz]], [[6t7y]] - PaPol III subunit + peptide<br />
+
**[[4tsz]], [[6t7y]] - PaPol III beta subunit + peptide<br />
-
**[[6t8h]] - PaPol III subunit + Dol II small subunit + DP2 – Cryo EM<br />
+
**[[6t8h]] - PaPol III beta subunit + Dol II small subunit + DP2 – Cryo EM<br />
-
**[[6djk]] - RtDpo III subunit + polypeptide <br />
+
**[[6djk]] - RtDpo III beta subunit + polypeptide <br />
-
**[[6dm6]] - RcPol III subunit + peptide<br />
+
**[[6dm6]] - RcPol III beta subunit + peptide<br />
-
**[[6dly]] - MmPol III subunit + peptide<br />
+
**[[6dly]] - MmPol III beta subunit + peptide<br />
-
**[[6ptv]] - RrPol III subunit + griselimycin<br />
+
**[[6ptv]] - RrPol III beta subunit + griselimycin<br />
-
**[[6ptr]] - BbPol III subunit + griselimycin<br />
+
**[[6ptr]] - BbPol III beta subunit + griselimycin<br />
*DNA polymerase III subunit gamma
*DNA polymerase III subunit gamma
-
**[[5c51]], [[5c52]], [[5c53]] - hDpo III subunit + DNA + nucleotide<br />
+
**[[5c51]], [[5c52]], [[5c53]] - hDpo III gamma subunit + DNA + nucleotide<br />
**[[1njf]], [[1njg]] - EcDpo III subunit  N-terminal domains 1-2<br />
**[[1njf]], [[1njg]] - EcDpo III subunit  N-terminal domains 1-2<br />
-
**[[2gno]] - TmDpo III subunit<br />
+
**[[2gno]] - TmDpo III gamma subunit<br />
**[[1xxh]], [[1jr3]] - EcDpo III subunit ’ <br />
**[[1xxh]], [[1jr3]] - EcDpo III subunit ’ <br />
**[[1xxi]] - EcDpo III subunit ’ + nucleotide<br />
**[[1xxi]] - EcDpo III subunit ’ + nucleotide<br />
Line 142: Line 142:
**[[1jqj]], [[1jql]] - EcDpo III subunit (mutant) <br />
**[[1jqj]], [[1jql]] - EcDpo III subunit (mutant) <br />
-
**[[1a5t]] - EcDpo III subunit ’ <br />
+
**[[1a5t]] - EcDpo III subunit delta’ <br />
**[[1xxh]], [[1jr3]] - EcDpo III subunit ’ <br />
**[[1xxh]], [[1jr3]] - EcDpo III subunit ’ <br />
**[[1xxi]] - EcDpo III subunit ’ + nucleotide<br />
**[[1xxi]] - EcDpo III subunit ’ + nucleotide<br />
Line 152: Line 152:
*DNA polymerase III subunit epsilon
*DNA polymerase III subunit epsilon
-
**[[2gui]] – EcDpo III subunit N-terminal<br />
+
**[[2gui]] – EcDpo III subunit epsilon N-terminal<br />
-
**[[1j53]], [[1j54]] - EcDpo III subunit N-terminal exonuclease domain<br />
+
**[[1j53]], [[1j54]] - EcDpo III subunit epsilon N-terminal exonuclease domain<br />
**[[2ido]] - EcDpo III subunit + HOT protein<br />
**[[2ido]] - EcDpo III subunit + HOT protein<br />
**[[4gx8]] - EcDpo III ε subunit/ EcDpo III α subunit<br />
**[[4gx8]] - EcDpo III ε subunit/ EcDpo III α subunit<br />
**[[4gx9]] - EcDpo III ε subunit/ EcDpo III α subunit (mutant)<br />
**[[4gx9]] - EcDpo III ε subunit/ EcDpo III α subunit (mutant)<br />
-
**[[2xy8]] - EcDpo III subunit ,<br />
+
**[[2xy8]] - EcDpo III subunit epsilon, theta<br />
*DNA polymerase III subunit tau
*DNA polymerase III subunit tau
-
**[[2aya]] - EcDpo III subunit <br />
+
**[[2aya]] - EcDpo III subunit tau<br />
-
**[[3glh]] - EcDpo III subunit ’<br />
+
**[[3glh]] - EcDpo III subunit delta, delta', tau<br />
-
**[[3glf]] - EcDpo III subunit ’ DNA<br />
+
**[[3glf]] - EcDpo III subunit delta, delta', tau DNA<br />
-
**[[3glg]] - EcDpo III subunit ’mutant DNA<br />
+
**[[3glg]] - EcDpo III subunit delta, delta', tau (mutant) + DNA<br />
*DNA polymerase III subunit xi
*DNA polymerase III subunit xi
-
**[[3gli]] - EcDpo III subunit ’ DNA<br />
+
**[[3gli]] - EcDpo III subunit delta, delta', tau, xi + DNA<br />
*DNA polymerase III subunit theta
*DNA polymerase III subunit theta
-
**[[2xy8]] - EcDpo III subunit ,<br />
+
**[[2axd]], [[2ae9]], [[1du2]] - EcDpo III subunit theta - NMR<br />
-
**[[2axd]], [[2ae9]], [[1du2]] - EcDpo III subunit - NMR<br />
+
*DNA polymerase III subunit chi+phi
*DNA polymerase III subunit chi+phi
-
**[[1em8]] - EcDpo III subunit ,<br />
+
**[[1em8]] - EcDpo III subunit chi, phi<br />
-
**[[3sxu]] - EcDpo III subunit , + peptide<br />
+
**[[3sxu]] - EcDpo III subunit chi, phi + peptide<br />
*DNA polymerase IV
*DNA polymerase IV
Line 190: Line 189:
**[[2xc9]], [[3m9m]], [[3m9n]], [[3m9o]], [[2v4q]], [[2v4r]], [[2ago]], [[1ryr]], [[1rys]], [[2w9a]], [[2w9b]], [[2w9c]], [[3gii]], [[3gij]], [[3gik]], [[3gil]], [[3gim]], [[3qz7]], [[3qz8]], [[3pvx]], [[3pw0]], [[3pw2]], [[3pw4]], [[3pw5]], [[3pw7]], [[3raq]], [[3rax]], [[3rb0]], [[3rb3]], [[3rb4]], [[3rb6]], [[3rbd]], [[3rbe]], [[4hyk]], [[4fbt]], [[4fbu]], [[4g3i]], [[4rzr]], [[6l84]], [[6l97]] - SsPol IV + DNA<br />
**[[2xc9]], [[3m9m]], [[3m9n]], [[3m9o]], [[2v4q]], [[2v4r]], [[2ago]], [[1ryr]], [[1rys]], [[2w9a]], [[2w9b]], [[2w9c]], [[3gii]], [[3gij]], [[3gik]], [[3gil]], [[3gim]], [[3qz7]], [[3qz8]], [[3pvx]], [[3pw0]], [[3pw2]], [[3pw4]], [[3pw5]], [[3pw7]], [[3raq]], [[3rax]], [[3rb0]], [[3rb3]], [[3rb4]], [[3rb6]], [[3rbd]], [[3rbe]], [[4hyk]], [[4fbt]], [[4fbu]], [[4g3i]], [[4rzr]], [[6l84]], [[6l97]] - SsPol IV + DNA<br />
**[[3fds]] – SsPol IV + PCNA B + PCNA C<br />
**[[3fds]] – SsPol IV + PCNA B + PCNA C<br />
-
**[[3bq2]], [[3bq0]] – SaPol IV + DNA – Sulfolobus acidocaldarius<br />
+
**[[3bq2]], [[3bq0]] – SaPol IV + DNA – ''Sulfolobus acidocaldarius''<br />
**[[3bq1]], [[4f4w]], [[4f4x]], [[4f4y]], [[4f4z]], [[4f50]] - SaPol IV + DNA + nucleotide<br />
**[[3bq1]], [[4f4w]], [[4f4x]], [[4f4y]], [[4f4z]], [[4f50]] - SaPol IV + DNA + nucleotide<br />
**[[4nlg]] - SaPol IV (mutant) + DNA<br />
**[[4nlg]] - SaPol IV (mutant) + DNA<br />
Line 219: Line 218:
**[[5n2g]], [[5n2e]] – VvDpo – Vaccinia virus<br />
**[[5n2g]], [[5n2e]] – VvDpo – Vaccinia virus<br />
**[[5n2h]] – VvDpo (mutant) <br />
**[[5n2h]] – VvDpo (mutant) <br />
-
**[[5mdn]] – Dpo – Pyrobaculum calidifontis<br />
+
**[[5mdn]] – Dpo – ''Pyrobaculum calidifontis''<br />
**[[1bgx]] – TaDpo + TP7 antibody<br />
**[[1bgx]] – TaDpo + TP7 antibody<br />
**[[1ih7]] – EpDpo - Enterobacteria phage RB69<br />
**[[1ih7]] – EpDpo - Enterobacteria phage RB69<br />
Line 236: Line 235:
**[[2pyj]], [[2pyl]] - BpDpo (mutant) + DNA + nucleotide<br />
**[[2pyj]], [[2pyl]] - BpDpo (mutant) + DNA + nucleotide<br />
**[[1xhx]] - BpDpo (mutant) <br />
**[[1xhx]] - BpDpo (mutant) <br />
-
**[[3a2f]] - PfDpo + PCNA - Pyrococcus furiosus<br />
+
**[[3a2f]] - PfDpo + PCNA - ''Pyrococcus furiosus''<br />
**[[2jgu]], [[4ahc]] – PfDpo<br />
**[[2jgu]], [[4ahc]] – PfDpo<br />
**[[4ail]] – PfDpo + DNA<br />
**[[4ail]] – PfDpo + DNA<br />
-
**[[1tgo]], [[7b06]], [[7b07]], [[7b08]] - TgDpo – Thermococcus gorgonarius<br />
+
**[[1tgo]], [[7b06]], [[7b07]], [[7b08]] - TgDpo – ''Thermococcus gorgonarius''<br />
**[[2vwk]] - TgDpo (mutant) <br />
**[[2vwk]] - TgDpo (mutant) <br />
**[[7b0h]] – TgDpo + DNA <br />
**[[7b0h]] – TgDpo + DNA <br />
Line 265: Line 264:
**[[4q5v]] - hDpo α catalytic subunit + DNA + RNA + aphidicolin <br />
**[[4q5v]] - hDpo α catalytic subunit + DNA + RNA + aphidicolin <br />
**[[4qcl]], [[7n2m]] - hDpo α catalytic subunit + DNA + RNA + nucleotide <br />
**[[4qcl]], [[7n2m]] - hDpo α catalytic subunit + DNA + RNA + nucleotide <br />
-
**[[2keb]] - hDpo B - NMR <br />
+
**[[2keb]] - hDpo alphaB - NMR <br />
-
**[[1n5g]], [[1k0p]], [[1k18]] - hDpo zinc finger domain – NMR<br />
+
**[[1n5g]], [[1k0p]], [[1k18]] - hDpo alpha zinc finger domain – NMR<br />
-
**[[7uy7]], [[7uy8l]] - Dpo α B subunit + DNA primase small+large subunits – Tetrahymena thermophile - Cryo EM<br />
+
**[[7uy7]], [[7uy8l]] - Dpo α B subunit + DNA primase small+large subunits – ''Tetrahymena thermophile'' - Cryo EM<br />
*DNA polymerase beta
*DNA polymerase beta
**[[4ppx]] - hDpo + spiroiminohydantoin + DNA<br />
**[[4ppx]] - hDpo + spiroiminohydantoin + DNA<br />
-
**[[1zjm]], [[1tv9]], [[1tva]], [[1bpx]], [[1bpz]], [[1zqa]], [[1zqb]], [[1zqc]], [[1zqd]], [[1zqf]], [[1zqg]], [[1zqh]], [[1zqi]], [[1zaj]], [[1zqk]], [[1zql]], [[1zqm]], [[1zqn]], [[1zqo]], [[1zqp]], [[1zqq]], [[1zqr]], [[1zqs]], [[1zqt]], [[1zqu]], [[1zqv]], [[1zqw]], [[1zqx]], [[1zqy]], [[1zqz]], [[1zqe]], [[3q8p]], [[3q8q]], [[3lk9]], [[3mby]], [[3isb]], [[3isc]], [[3gdx]], [[3rh4]], [[3rh5]], [[3rh6]], [[4gxi]], [[4gxj]], [[4gxk]], [[4kld]], [[4kle]], [[4klf]], [[4klg]], [[4klh]], [[4kli]], [[4klj]], [[4kll]], [[4klm]], [[4klo]], [[4klp]], [[4klq]], [[4kls]], [[4klt]], [[4klu]], [[1zqj]], [[4lvs]], [[4m2y]], [[4m47]], [[4nlk]], [[4nln]], [[4nlz]], [[4nm1]], [[4nm2]], [[4pgy]], [[4tup]], [[4tuq]], [[4tur]], [[4tus]], [[5wo0]], [[5wnz]], [[5wny]], [[5wnx]], [[5vs4]], [[5vs3]], [[5vs2]], [[5vs1]], [[5vs0]], [[5vrz]], [[5vry]], [[5vrx]], [[5vrw]], [[5vez]], [[5v1r]], [[5v1p]], [[5v1o]], [[5v1n]], [[5v1j]], [[5v1i]], [[5v1h]], [[5v1g]], [[5v1f]], [[5ugp]], [[5ugo]], [[5ugn]], [[5u9h]], [[5u8i]], [[5u8h]], [[5u8g]], [[5u2t]], [[5u2s]], [[5u2r]], [[5tzv]], [[5tbc]], [[5tbb]], [[5tba]], [[5tb9]], [[5tb8]], [[5j2k]], [[5j2j]], [[5j2i]], [[5j2h]], [[5j2g]], [[5j2f]], [[5j2e]], [[5j2d]], [[5j2c]], [[5j2b]], [[5j2a]], [[5j29]], [[5j0y]], [[5j0x]], [[5j0w]], [[5j0u]], [[5j0t]], [[5j0s]], [[5j0r]], [[5j0q]], [[5j0p]], [[5j0o]], [[5dbc]], [[5dbb]], [[5dba]], [[5db9]], [[5db8]], [[5db7]], [[5db6]], [[6g2q]], [[6ph5]], [[7ice]], [[7icf]], [[7ici]], [[7icj]], [[7icl]], [[7icm]], [[7icp]], [[7icr]], [[7ict]], [[7icg]], [[7ich]], [[7icj]], [[7ick]], [[7icm]], [[7icn]], [[7ico]], [[7icp]], [[7icq]], [[7icr]], [[7ics]], [[7ict]], [[7icu]], [[7icv]], [[7k97]], [[8icb]], [[8icc]], [[9icj]], [[9ick]], [[9icl]], [[9icm]], [[9icp]], [[9icw]], [[9icx]], [[9icy]] - hDpo + DNA<br />
+
**[[1zjm]], [[1tv9]], [[1tva]], [[1bpx]], [[1bpz]], [[1zqa]], [[1zqb]], [[1zqc]], [[1zqd]], [[1zqf]], [[1zqg]], [[1zqh]], [[1zqi]], [[1zaj]], [[1zqk]], [[1zql]], [[1zqm]], [[1zqn]], [[1zqo]], [[1zqp]], [[1zqq]], [[1zqr]], [[1zqs]], [[1zqt]], [[1zqu]], [[1zqv]], [[1zqw]], [[1zqx]], [[1zqy]], [[1zqz]], [[1zqe]], [[3q8p]], [[3q8q]], [[3lk9]], [[3mby]], [[3isb]], [[3isc]], [[3gdx]], [[3rh4]], [[3rh5]], [[3rh6]], [[4gxi]], [[4gxj]], [[4gxk]], [[4kld]], [[4kle]], [[4klf]], [[4klg]], [[4klh]], [[4kli]], [[4klj]], [[4kll]], [[4klm]], [[4klo]], [[4klp]], [[4klq]], [[4kls]], [[4klt]], [[4klu]], [[1zqj]], [[4lvs]], [[4m2y]], [[4m47]], [[4nlk]], [[4nln]], [[4nlz]], [[4nm1]], [[4nm2]], [[4pgy]], [[4tup]], [[4tuq]], [[4tur]], [[4tus]], [[5wo0]], [[5wnz]], [[5wny]], [[5wnx]], [[5vs4]], [[5vs3]], [[5vs2]], [[5vs1]], [[5vs0]], [[5vrz]], [[5vry]], [[5vrx]], [[5vrw]], [[5vez]], [[5v1r]], [[5v1p]], [[5v1o]], [[5v1n]], [[5v1j]], [[5v1i]], [[5v1h]], [[5v1g]], [[5v1f]], [[5ugp]], [[5ugo]], [[5ugn]], [[5u9h]], [[5u8i]], [[5u8h]], [[5u8g]], [[5u2t]], [[5u2s]], [[5u2r]], [[5tzv]], [[5tbc]], [[5tbb]], [[5tba]], [[5tb9]], [[5tb8]], [[5j2k]], [[5j2j]], [[5j2i]], [[5j2h]], [[5j2g]], [[5j2f]], [[5j2e]], [[5j2d]], [[5j2c]], [[5j2b]], [[5j2a]], [[5j29]], [[5j0y]], [[5j0x]], [[5j0w]], [[5j0u]], [[5j0t]], [[5j0s]], [[5j0r]], [[5j0q]], [[5j0p]], [[5j0o]], [[5dbc]], [[5dbb]], [[5dba]], [[5db9]], [[5db8]], [[5db7]], [[5db6]], [[6g2q]], [[6ph5]], [[7ice]], [[7icf]], [[7ici]], [[7icj]], [[7icl]], [[7icm]], [[7icp]], [[7icr]], [[7ict]], [[7icg]], [[7ich]], [[7icj]], [[7ick]], [[7icm]], [[7icn]], [[7ico]], [[7icp]], [[7icq]], [[7icr]], [[7ics]], [[7ict]], [[7icu]], [[7icv]], [[7k97]], [[8icb]], [[8icc]], [[9icj]], [[9ick]], [[9icl]], [[9icm]], [[9icp]], [[9icw]], [[9icx]], [[9icy]] - hDpo beta + DNA<br />
-
**[[1bpy]], [[1mq2]], [[1mq3]], [[1zjn1]], [[2pxi]], [[2iso]], [[2isp]], [[2i9g]], [[2fmp]], [[2fmq]], [[2fms]], [[3jpn]], [[3jpo]], [[3jpp]], [[3jpq]], [[3jpr]], [[3jpt]], [[3jps]], [[3isd]], [[3c2k]], [[3c2l]], [[3c2m]], [[3rje]], [[3rjf]], [[3rjg]], [[3rjh]], [[3rji]], [[3rjj]], [[3rjk]], [[3tfr]], [[3tfs]], [[4do9]], [[4doa]], [[4dob]], [[4doc]], [[4mf2]], [[4mf8]], [[4mfa]], [[4mfc]], [[4mff]], [[4nxz]], [[4ny8]], [[4o5c]], [[4o5e]], [[4o5k]], [[4o9m]], [[4p2h]], [[4pgq]], [[4pgx]], [[4pha]], [[4phd]], [[4uaw]], [[4uay]], [[4uaz]], [[4ub1]], [[4ub2]], [[4ub3]], [[4ub4]], [[4ub5]], [[4ubb]], [[4ubc]], [[4z6f]], [[4z6e]], [[4z6d]], [[4z6c]], [[4yn4]], [[4ymo]], [[4ymn]], [[4ymm]], [[4rt3]], [[4rt2]], [[4rq8]], [[4rq7]], [[4rq6]], [[4rq5]], [[4rq4]], [[4rq3]], [[4rq2]], [[4rq1]], [[4rq0]], [[4rpz]], [[4rpy]], [[4rpx]], [[4php]], [[4phe]], [[4ph5]], [[5eoz]], [[5bpc]], [[5bom]], [[5bol]], [[7mz0]], [[7mz1]], [[7mz2]], [[7mz3]], [[7mz4]], [[7mzb]], [[7rbe]], [[7rbf]], [[7rbg]], [[7rbh]], [[7rbi]], [[7rbj]], [[7rbk]], [[7rbl]], [[7rbm]], [[7rbn]], [[7rbo]], [[7s9j]], [[7s9k]], [[7s9l]], [[7s9m]], [[7s9n]], [[7s9o]], [[7a9p]], [[7s9q]], [[8ica]], [[8ice]], [[8icf]], [[8icg]], [[8ich]], [[8ici]], [[8icj]], [[8ick]], [[8icl]], [[8icm]], [[8icn]], [[8ico]], [[8icp]], [[8icq]], [[8icr]], [[8ics]], [[8ict]], [[8icu]], [[8icv]], [[8icw]], [[8icx]], [[8icy]], [[8icz]], [[9ica]], [[9icb]], [[9icc]], [[9ice]], [[9icf]], [[9icg]], [[9ich]], [[9ici]], [[9icn]], [[9ico]] [[9icq]], [[9icr]], [[9ics]], [[9ict]], [[9icu]], [[9icv]] - hDpo + DNA + nucleotide<br />
+
**[[1bpy]], [[1mq2]], [[1mq3]], [[1zjn1]], [[2pxi]], [[2iso]], [[2isp]], [[2i9g]], [[2fmp]], [[2fmq]], [[2fms]], [[3jpn]], [[3jpo]], [[3jpp]], [[3jpq]], [[3jpr]], [[3jpt]], [[3jps]], [[3isd]], [[3c2k]], [[3c2l]], [[3c2m]], [[3rje]], [[3rjf]], [[3rjg]], [[3rjh]], [[3rji]], [[3rjj]], [[3rjk]], [[3tfr]], [[3tfs]], [[4do9]], [[4doa]], [[4dob]], [[4doc]], [[4mf2]], [[4mf8]], [[4mfa]], [[4mfc]], [[4mff]], [[4nxz]], [[4ny8]], [[4o5c]], [[4o5e]], [[4o5k]], [[4o9m]], [[4p2h]], [[4pgq]], [[4pgx]], [[4pha]], [[4phd]], [[4uaw]], [[4uay]], [[4uaz]], [[4ub1]], [[4ub2]], [[4ub3]], [[4ub4]], [[4ub5]], [[4ubb]], [[4ubc]], [[4z6f]], [[4z6e]], [[4z6d]], [[4z6c]], [[4yn4]], [[4ymo]], [[4ymn]], [[4ymm]], [[4rt3]], [[4rt2]], [[4rq8]], [[4rq7]], [[4rq6]], [[4rq5]], [[4rq4]], [[4rq3]], [[4rq2]], [[4rq1]], [[4rq0]], [[4rpz]], [[4rpy]], [[4rpx]], [[4php]], [[4phe]], [[4ph5]], [[5eoz]], [[5bpc]], [[5bom]], [[5bol]], [[7mz0]], [[7mz1]], [[7mz2]], [[7mz3]], [[7mz4]], [[7mzb]], [[7rbe]], [[7rbf]], [[7rbg]], [[7rbh]], [[7rbi]], [[7rbj]], [[7rbk]], [[7rbl]], [[7rbm]], [[7rbn]], [[7rbo]], [[7s9j]], [[7s9k]], [[7s9l]], [[7s9m]], [[7s9n]], [[7s9o]], [[7a9p]], [[7s9q]], [[8ica]], [[8ice]], [[8icf]], [[8icg]], [[8ich]], [[8ici]], [[8icj]], [[8ick]], [[8icl]], [[8icm]], [[8icn]], [[8ico]], [[8icp]], [[8icq]], [[8icr]], [[8ics]], [[8ict]], [[8icu]], [[8icv]], [[8icw]], [[8icx]], [[8icy]], [[8icz]], [[9ica]], [[9icb]], [[9icc]], [[9ice]], [[9icf]], [[9icg]], [[9ich]], [[9ici]], [[9icn]], [[9ico]] [[9icq]], [[9icr]], [[9ics]], [[9ict]], [[9icu]], [[9icv]] - hDpo beta + DNA + nucleotide<br />
**[[2p66]], [[4f5n]], [[6n2t]], [[6n2s]], [[6n2r]], [[6mr8]], [[6mr7]], [[6e3x]], [[6e3w]], [[6e3v]], [[6e3r]], [[6dia]], [[6cub]], [[6cua]], [[6cu9]], [[6ctx]], [[6ctw]], [[6ctv]], [[6ctu]], [[6ctt]], [[6ctr]],
**[[2p66]], [[4f5n]], [[6n2t]], [[6n2s]], [[6n2r]], [[6mr8]], [[6mr7]], [[6e3x]], [[6e3w]], [[6e3v]], [[6e3r]], [[6dia]], [[6cub]], [[6cua]], [[6cu9]], [[6ctx]], [[6ctw]], [[6ctv]], [[6ctu]], [[6ctt]], [[6ctr]],
-
[[6ctq]], [[6ctp]], [[6cto]], [[6ctn]], [[6ctm]], [[6ctl]], [[6ctk]], [[6ctj]], [[6cti]], [[6crh]], [[6crc]], [[6crb]], [[6cr9]], [[6cr8]], [[6cr7]], [[6cr6]], [[6cr5]], [[6cr4]], [[6cr3]], [[6cpq]], [[6cly]], [[6bem]], [[6bel]], [[6ph6]], [[6u2o]], [[6u6b]], [[6uok]], [[6uol]], [[6uom]], [[6w2m]], [[7k96]] - hDpo + DNA + nucleotide analog<br />
+
[[6ctq]], [[6ctp]], [[6cto]], [[6ctn]], [[6ctm]], [[6ctl]], [[6ctk]], [[6ctj]], [[6cti]], [[6crh]], [[6crc]], [[6crb]], [[6cr9]], [[6cr8]], [[6cr7]], [[6cr6]], [[6cr5]], [[6cr4]], [[6cr3]], [[6cpq]], [[6cly]], [[6bem]], [[6bel]], [[6ph6]], [[6u2o]], [[6u6b]], [[6uok]], [[6uol]], [[6uom]], [[6w2m]], [[7k96]] - hDpo beta + DNA + nucleotide analog<br />
-
**[[4f5o]], [[4f5p]], [[4f5q]], [[4f5r]], [[6dic]], [[6btf]], [[6bte]], [[6nkr]], [[6nks]], [[6nkt]], [[6nku]], [[6nkv]], [[6nkw]], [[6nkx]], [[6nky]], [[6nkz]], [[6nl0]], [[6pkz]] - hDpo (mutant) + DNA + nucleotide analog<br />
+
**[[4f5o]], [[4f5p]], [[4f5q]], [[4f5r]], [[6dic]], [[6btf]], [[6bte]], [[6nkr]], [[6nks]], [[6nkt]], [[6nku]], [[6nkv]], [[6nkw]], [[6nkx]], [[6nky]], [[6nkz]], [[6nl0]], [[6pkz]] - hDpo beta (mutant) + DNA + nucleotide analog<br />
-
**[[3ogu]], [[4jwm]], [[4jwn]], [[4m9g]], [[4m9h]], [[4m9j]], [[4m9l]], [[4m9n]], [[4r63]], [[4r64]], [[4r65]], [[4r66]] - hDpo (mutant) + DNA<br />
+
**[[3ogu]], [[4jwm]], [[4jwn]], [[4m9g]], [[4m9h]], [[4m9j]], [[4m9l]], [[4m9n]], [[4r63]], [[4r64]], [[4r65]], [[4r66]] - hDpo beta (mutant) + DNA<br />
-
**[[5hhi]], [[5hhh]] - hDpo + DNA + azanide derivative<br />
+
**[[5hhi]], [[5hhh]] - hDpo beta + DNA + azanide derivative<br />
-
**[[2v6z]] - hDpo N-terminal (mutant)]] - NMR<br />
+
**[[2v6z]] - hDpo beta N-terminal (mutant)]] - NMR<br />
-
**[[3k75]], [[3lqc]] - hDpo + DNA repair protein XRCC1<br />
+
**[[3k75]], [[3lqc]] - hDpo beta + DNA repair protein XRCC1<br />
-
**[[1rpl]], [[2bpc]], [[1bpe]], [[1bpb]], [[1bpd]], [[3uxn]] - rDpo – rat<br />
+
**[[1rpl]], [[2bpc]], [[1bpe]], [[1bpb]], [[1bpd]], [[3uxn]] - rDpo beta – rat<br />
-
**[[2van]], [[1jn3]], [[3uxo]], [[3v7l]]- rDpo (mutant) <br />
+
**[[2van]], [[1jn3]], [[3uxo]], [[3v7l]]- rDpo beta (mutant) <br />
-
**[[1dk2]], [[1dk3]], [[1bno]], [[1bnp]] - rDpo N-terminal – NMR<br />
+
**[[1dk2]], [[1dk3]], [[1bno]], [[1bnp]] - rDpo beta N-terminal – NMR<br />
-
**[[1nom]] - rDpo C-terminal<br />
+
**[[1nom]] - rDpo beta C-terminal<br />
-
**[[1huo]], [[1huz]], [[3v7j]] - rDpo + DNA<br />
+
**[[1huo]], [[1huz]], [[3v7j]] - rDpo beta + DNA<br />
-
**[[3uxp]], [[3v72]], [[3v7k]] - rDpo (mutant) + DNA <br />
+
**[[3uxp]], [[3v72]], [[3v7k]] - rDpo beta (mutant) + DNA <br />
-
**[[1bpe]] - rDpo + nucleotide<br />
+
**[[1bpe]] - rDpo beta + nucleotide<br />
-
**[[2bpf]], [[2bpg]] - rDpo + DNA + nucleotide<br />
+
**[[2bpf]], [[2bpg]] - rDpo beta + DNA + nucleotide<br />
-
**[[8e10]] - mDpo <br />
+
**[[8e10]] - mDpo beta<br />
-
**[[8e11]] - mDpo (mutant)<br />
+
**[[8e11]] - mDpo beta (mutant)<br />
-
**[[3au2]] – TtDpo β + GTP – Thermus thermophilus<br />
+
**[[3au2]] – TtDpo β + GTP – ''Thermus thermophilus''<br />
**[[3b0x]], [[3b0y]] – TtDpo β (mutant) + GTP<br />
**[[3b0x]], [[3b0y]] – TtDpo β (mutant) + GTP<br />
**[[3au6]], [[3auo]] – TtDpo β + GTP + DNA<br />
**[[3au6]], [[3auo]] – TtDpo β + GTP + DNA<br />
-
**[[4p4m]], [[4p4o]], [[4p4p]] - Dpo + DNA + nucleotide – Leishmania infantum<br />
+
**[[4p4m]], [[4p4o]], [[4p4p]] - Dpo + DNA + nucleotide – ''Leishmania infantum''<br />
*DNA polymerase beta-like protein
*DNA polymerase beta-like protein
Line 306: Line 305:
*DNA polymerase gamma
*DNA polymerase gamma
-
**[[3ikm]] - hDpo 1+2 <br />
+
**[[3ikm]] - hDpo gamma1+gamma2 <br />
-
**[[3ikl]], [[2g4c]] - hDpo 2<br />
+
**[[3ikl]], [[2g4c]] - hDpo gamma2<br />
-
**[[2jw5]] - hDpo BRCT domain<br />
+
**[[2jw5]] - hDpo gamma BRCT domain<br />
-
**[[1xsl]] - hDpo catalytic domain<br />
+
**[[1xsl]] - hDpo gamma catalytic domain<br />
-
**[[1nzp]] - hDpo lyase domain - NMR<br />
+
**[[1nzp]] - hDpo gamma lyase domain - NMR<br />
-
**[[3pmn]], [[3pnc]], [[3mda]], [[2gws]], [[2bcq]], [[2bcr]], [[2bcs]], [[2bcu]], [[2bcv]], [[1xsp]], [[1rzt]] - hDpo + DNA<br />
+
**[[3pmn]], [[3pnc]], [[3mda]], [[2gws]], [[2bcq]], [[2bcr]], [[2bcs]], [[2bcu]], [[2bcv]], [[1xsp]], [[1rzt]] - hDpo gamma + DNA<br />
-
**[[3mgh]], [[3c5f]], [[3c5g]], [[2pfn]] - hDpo (mutant) + DNA<br />
+
**[[3mgh]], [[3c5f]], [[3c5g]], [[2pfn]] - hDpo gamma (mutant) + DNA<br />
-
**[[3pml]], [[3mdc]], [[1xsn]] - hDpo + DNA + nucleotide<br />
+
**[[3pml]], [[3mdc]], [[1xsn]] - hDpo gamma + DNA + nucleotide<br />
-
**[[5c53]], [[5c52]], [[5c51]] - hDpo  + DNA + nucleotide + pyrimidine derivative<br />
+
**[[5c53]], [[5c52]], [[5c51]] - hDpo gamma1 + DNA + nucleotide + pyrimidine derivative<br />
-
**[[4ztz]], [[4ztu]] - hDpo  + DNA + nucleotide <br />
+
**[[4ztz]], [[4ztu]] - hDpo gamma1, gamma2 + DNA + nucleotide <br />
-
**[[4k4g]], [[4k4h]], [[4k4i]] - hDpo + DNA + nucleotide analog<br />
+
**[[4k4g]], [[4k4h]], [[4k4i]] - hDpo gamma + DNA + nucleotide analog<br />
-
**[[3mgi]], [[3hw8]], [[3hwt]], [[3hx0]], [[2pfo]], [[2pfp]], [[2pfq]] - hDpo (mutant) + DNA + nucleotide<br />
+
**[[3mgi]], [[3hw8]], [[3hwt]], [[3hx0]], [[2pfo]], [[2pfp]], [[2pfq]] - hDpo gamma (mutant) + DNA + nucleotide<br />
*DNA polymerase delta
*DNA polymerase delta
-
**[[3e0j]] - hDpo 2+3<br />
+
**[[3e0j]] - hDpo delta2+delta3<br />
**[[3upq]], [[3uq0]], [[3uq2]] - hDpo δ (mutant) + DNA<br />
**[[3upq]], [[3uq0]], [[3uq2]] - hDpo δ (mutant) + DNA<br />
**[[4fo6]] - hDpo δ (mutant) + DNA + nucleotide analog<br />
**[[4fo6]] - hDpo δ (mutant) + DNA + nucleotide analog<br />
Line 330: Line 329:
*DNA polymerase epsilon
*DNA polymerase epsilon
-
**[[5vbn]] - hDpo subunits A+2 <br />
+
**[[5vbn]] - hDpo epsilon subunits A+2 <br />
*DNA polymerase zeta
*DNA polymerase zeta
-
**[[3abd]], [[3abe]] - hDpo catalytic subunit Rev3 + mitotic spindle assembly checkpoint protein Rev7<br />
+
**[[3abd]], [[3abe]] - hDpo zeta catalytic subunit Rev3 + mitotic spindle assembly checkpoint protein Rev7<br />
-
**[[6ekm]], [[6bi7]], [[6bcd]], [[6bc8]] - hDpo  catalytic subunit + MAD2B<br />
+
**[[6ekm]], [[6bi7]], [[6bcd]], [[6bc8]] - hDpo zeta catalytic subunit + MAD2B<br />
-
**[[3vu7]], [[4gk0]], [[6ws0]] - hDpo  catalytic subunit + DNA repair protein Rev1 + MAD2B<br />
+
**[[3vu7]], [[4gk0]], [[6ws0]] - hDpo zeta catalytic subunit + DNA repair protein Rev1 + MAD2B<br />
-
**[[6ws5]] - hDpo  catalytic subunit + DNA repair protein Rev1 + MAD2B + inhibitor<br />
+
**[[6ws5]] - hDpo zeta catalytic subunit + DNA repair protein Rev1 + MAD2B + inhibitor<br />
-
**[[4fjo]], [[4gk5]] - hDpo + hDpo  catalytic subunit + DNA repair protein Rev1 + MAD2B<br />
+
**[[4fjo]], [[4gk5]] - hDpo kappa + hDpo zeta catalytic subunit + DNA repair protein Rev1 + MAD2B<br />
-
**[[6v8p]] - hDpo  catalytic subunit + hDpo d subunits 3+small – Cryo EM<br />
+
**[[6v8p]] - hDpo zeta catalytic subunit + hDpo d subunits 3+small – Cryo EM<br />
-
**[[6v93]] - hDpo  catalytic+processivity subunits + hDpo d subunits 3+small + DNA + dCTP – Cryo EM<br />
+
**[[6v93]] - hDpo zeta catalytic+processivity subunits + hDpo d subunits 3+small + DNA + dCTP – Cryo EM<br />
*DNA polymerase eta
*DNA polymerase eta
Line 416: Line 415:
*DNA polymerase from yeast
*DNA polymerase from yeast
-
**[[3oiq]] - yDpo + cell division control protein 13 <br />
+
**[[3oiq]] - yDpo alpha + cell division control protein 13 <br />
-
**[[3flo]], [[3lgb]] - yDpo  subunits A,B<br />
+
**[[3flo]], [[3lgb]] - yDpo alpha subunits A,B<br />
-
**[[4b08]], [[4fvm]] - yDpo  subunit A<br />
+
**[[4b08]], [[4fvm]] - yDpo alpha subunit A<br />
-
**[[4fxd]], [[4fyd]] - yDpo  subunit A + RNA + DNA<br />
+
**[[4fxd]], [[4fyd]] - yDpo alpha subunit A + RNA + DNA<br />
-
**[[5oki]] - yDpo  subunit A + DCC1 + chromosome fidelity protein<br />
+
**[[5oki]] - yDpo alpha subunit A + DCC1 + chromosome fidelity protein<br />
-
**[[3iay]] - yDpo catalytic subunit + DNA<br />
+
**[[3iay]] - yDpo delta catalytic subunit + DNA<br />
-
**[[6p1h]] - yDpo catalytic+small+3 subunits + DNA + nucleotide – Cryo EM<br />
+
**[[6p1h]] - yDpo delta catalytic+small+3 subunits + DNA + nucleotide – Cryo EM<br />
-
**[[6wjv]] - yDpo II  – Cryo EM<br />
+
**[[6wjv]] - yDpo II epsilon – Cryo EM<br />
-
**[[6hv8]] - yDpo II subunit A+B – Cryo EM<br />
+
**[[6hv8]] - yDpo II epsilon subunit A+B – Cryo EM<br />
-
**[[3oha]], [[3ohb]], [[3mfh]] - yDpo (mutant) + DNA<br />
+
**[[3oha]], [[3ohb]], [[3mfh]] - yDpo epsilon (mutant) + DNA<br />
-
**[[6i8a]], [[6qib]], [[7r3x]], [[7r3y]] - yDpo II subunit A + DNA + nucleotide <br />
+
**[[6i8a]], [[6qib]], [[7r3x]], [[7r3y]] - yDpo II epsilon subunit A + DNA + nucleotide <br />
-
**[[6g0a]], [[6fwk]], [[3mfi]], [[4m8o]] - yDpo II subunit A (mutant) + DNA + nucleotide derivative<br />
+
**[[6g0a]], [[6fwk]], [[3mfi]], [[4m8o]] - yDpo II epsilon subunit A (mutant) + DNA + nucleotide derivative<br />
-
**[[6s1c]], [[6s2e]], [[6s2f]] - yDpo II subunit A (mutant) + DCC1 + chromosome transmission fidelity proteins<br />
+
**[[6s1c]], [[6s2e]], [[6s2f]] - yDpo II epsilon subunit A (mutant) + DCC1 + chromosome transmission fidelity proteins<br />
-
**[[6hv9]] - yDpo II subunit A+B + CMG + DNA + nucleotide – Cryo EM<br />
+
**[[6hv9]] - yDpo II epsilon subunit A+B + CMG + DNA + nucleotide – Cryo EM<br />
-
**[[2r8j]], [[2r8k]], [[4ptf]] - yDpo catalytic domain + DNA + nucleotide <br />
+
**[[2r8j]], [[2r8k]], [[4ptf]] - yDpo epsilon catalytic domain + DNA + nucleotide <br />
-
**[[6h1v]] - yDpo catalytic domain (mutant) + DNA + nucleotide <br />
+
**[[6h1v]] - yDpo epsilon catalytic domain (mutant) + DNA + nucleotide <br />
-
**[[2xgp]], [[2xgq]], [[2wtf]] - yDpo + DNA<br />
+
**[[2xgp]], [[2xgq]], [[2wtf]] - yDpo epsilon + DNA<br />
-
**[[7lxd]] - yDpo  catalytic+processivity subunits + hDpo d subunits 3+small – Cryo EM<br />
+
**[[7lxd]] - yDpo eta catalytic+processivity subunits + hDpo d subunits 3+small – Cryo EM<br />
-
**[[7s0t]] - yDpo  catalytic+processivity subunits + hDpo d subunits 3+small + DNA – Cryo EM<br />
+
**[[7s0t]] - yDpo eta catalytic+processivity subunits + hDpo d subunits 3+small + DNA – Cryo EM<br />
-
**[[5y27]], [[5y26]] - Dpo subunit D + transcription factor – fission yeast<br />
+
**[[5y27]], [[5y26]] - Dpo epsilon subunit D + transcription factor – fission yeast<br />
**[[1jih]], [[5vtp]] – yDpo catalytic domain<br />
**[[1jih]], [[5vtp]] – yDpo catalytic domain<br />
Line 447: Line 446:
**[[2lsg]], [[2lsy]] – hRev1 C-terminal domain – NMR<br />
**[[2lsg]], [[2lsy]] – hRev1 C-terminal domain – NMR<br />
**[[2n1g]] – hRev1 C-terminal domain + Dpo d subunit 3 – NMR<br />
**[[2n1g]] – hRev1 C-terminal domain + Dpo d subunit 3 – NMR<br />
-
**[[2lsi]] – hRev1 C-terminal domain + hDpo peptide <br />
+
**[[2lsi]] – hRev1 C-terminal domain + hDpo kappa peptide <br />
-
**[[2lsk]] – hRev1 C-terminal domain + hDpo peptide <br />
+
**[[2lsk]] – hRev1 C-terminal domain + hDpo kappa peptide <br />
-
**[[4ext]] – hRev1 C-terminal domain + hDpo  catalytic subunit peptide + MAD2B<br />
+
**[[4ext]] – hRev1 C-terminal domain + hDpo eta catalytic subunit peptide + MAD2B<br />
-
**[[4gk5]] – hRev1 C-terminal domain + hDpo peptide + hDpo  catalytic subunit peptide + MAD2B<br />
+
**[[4gk5]] – hRev1 C-terminal domain + hDpo kappa peptide + hDpo eta catalytic subunit peptide + MAD2B<br />
-
**[[2lsj]] – mRev1 C-terminal domain + mDpo peptide <br />
+
**[[2lsj]] – mRev1 C-terminal domain + mDpo kappa peptide <br />
-
**[[4fjo]] – mRev1 C-terminal domain + mDpo peptide + MAD2B<br />
+
**[[4fjo]] – mRev1 C-terminal domain + mDpo kappa peptide + MAD2B<br />
**[[4id3]], [[5umv]] – yRev1 BRCT domain <br />
**[[4id3]], [[5umv]] – yRev1 BRCT domain <br />
**[[2m2i]], [[5vx7]] – yRev1 BRCT domain – NMR<br />
**[[2m2i]], [[5vx7]] – yRev1 BRCT domain – NMR<br />
Line 458: Line 457:
**[[3bjy]], [[2aq4]], [[3osp]], [[5wm1]], [[5wm8]], [[5wmb]], [[6x6z]], [[6x71]], [[6x75]], [[6x77]] – yRev1 catalytic domain + DNA + nucleotide<br />
**[[3bjy]], [[2aq4]], [[3osp]], [[5wm1]], [[5wm8]], [[5wmb]], [[6x6z]], [[6x71]], [[6x75]], [[6x77]] – yRev1 catalytic domain + DNA + nucleotide<br />
-
 Terminal deoxynucleotidyl transferase
+
*Terminal deoxynucleotidyl transferase
**[[2coe]] – TdT BRCT domain – NMR<br />
**[[2coe]] – TdT BRCT domain – NMR<br />
**[[1jms]] – mTdT catalytic domain + Mg <br / >
**[[1jms]] – mTdT catalytic domain + Mg <br / >
-
Terminal deoxynucleotidyl transferase binary complex
+
*Terminal deoxynucleotidyl transferase binary complex
**[[4iqt]], [[4iqu]], [[4iqv]], [[4iqw]] – mTdT catalytic domain + inhibitor <br / >
**[[4iqt]], [[4iqu]], [[4iqv]], [[4iqw]] – mTdT catalytic domain + inhibitor <br / >
Line 475: Line 474:
**[[4i2a]] – mTdT catalytic domain + UMP derivative + Mg <br / >
**[[4i2a]] – mTdT catalytic domain + UMP derivative + Mg <br / >
-
Terminal deoxynucleotidyl transferase ternary complex with DNA
+
*Terminal deoxynucleotidyl transferase ternary complex with DNA
**[[4i2e]] – mTdT catalytic domain + AMPCPP + Co + DNA <br / >
**[[4i2e]] – mTdT catalytic domain + AMPCPP + Co + DNA <br / >
Line 485: Line 484:
}}
}}
 +
[[Category:Topic Page]]
[[Category:Topic Page]]

Revision as of 10:16, 6 February 2023

3D Structures of DNA polymerase

Updated on 06-February-2023 {{#tree:id=OrganizedByTopic|openlevels=0|

  • DNA polymerase I
  • DNA polymerase I klenow fragment or Taq polymerase
  • DNA polymerase II
    • 3maq, 3k57, 3k58, 3k59, 3k5l, 3k5m - EcDpo II (mutant) + DNA + nucleotide
    • 3k5n - EcDpo II (mutant) + DNA
    • 3k5o, 1q8i - EcDpo II (mutant)
    • 3o59, 5bkh - PhDpo II large subunit - Pyrococcus horikoshii
    • 2kxe - PhDpo II small subunit
    • 1qqc – DeDpo II – Desulfurococcus
    • 5ijl - PaDpo II large subunit
    • 5ihe - PaDpo II small subunit
    • 6hmf - PaDpo II small subunit (mutant)
    • 6hms - PaDpo II small+large subunits + DNA – Cryo EM
    • 6knb, 6knc - TkPol II small+large subunits + PCNA + DNA - Thermococcus kodakarensis – Cryo EM
    • 7rsr, 7rss, 7rsu, 7tqw - TkPol + purine derivative + DNA
    • 7om3, 7omb, 7omg - TkPol + DNA + nucleotide
    • 7e15 - TkPol II small subunit + GINS51 + ssDNA-specific exonuclease
  • DNA polymerase III subunit alpha
    • 2hnh, 2hqa - EcDpo III subunit alpha catalytic fragment
    • 4jom - EcDpo III alpha subunit catalytic fragment (mutant)
    • 5m1s, 5fkw, 5fkv, 5fku - EcDpo III (mutant) subunits + DNA – Cryo EM
    • 1ok7 - EcDpo III residues 1-366 + EcDpo IV C-terminal
    • 2hpi, 2hpm - TaDpo III alpha subunit
    • 3e0d - TaDpo III alpha subunit + DNA
    • 3f2b, 3f2c, 3f2d, 4iqj – GkDpo III alpha subunit + DNA + nucleotide
    • 1zd7, 1zde, 3nzm, 5ol5, 5ol1 - SyDpo III alpha subunit – Synechocystis
    • 4gig - SyDpo III alpha subunit (mutant)
    • 2keq, 4kl5, 4kl6 - NpDpo III alpha subunit – Nostoc punctiforme
    • 4lx3, 4qfq - NpDpo III alpha subunit + nucleic acid binding tRNA/helicase
    • 5lew - MtPol III alpha subunit – Mycobacterrium tuberculosis
    • 7pu7 - MtDpo III alpha subunit + DNA
  • DNA polymerase III subunit beta or sliding clamp
    • 1mmi, 2pol, 4k3s, 4pnv, 4pnw - EcDpo III subunit beta
    • 2xur, 3f1v, 3pwe - EcDpo III subunit beta (mutant)
    • 3d1e - EcDpo III subunit beta + EcDpo II C-terminal
    • 1unn - EcDpo III subunit beta + EcDpo IV little finger
    • 2avt - Dpo III beta subunit – Streptococcus pyogenes
    • 2awa - Dpo III beta subunit – Streptococcus pneumoniae
    • 4trt – DrDpo III beta subunit – Deinococcus radiodurans
    • 2p1j – TmDpo III exonuclease domain – Thermotoga maritima
    • 1vpk - TmDpo III beta subunit
    • 3t0p - Dpo III beta subunit – Eubacterium rectale
    • 6ap4 - Dpo III beta subunit – Acinetobacter baumannii
    • 6amq - Dpo III beta subunit – Enterobacter cloacae
    • 5wyp, 5wce, 6izo, 6jir - Dpo III beta subunit – Caulobacter crescentus
    • 5w7z - RcDpo III beta subunit – Rickettsia conorii
    • 6man - Dpo III beta subunit – Rickettsia bellii
    • 6d46 - RtDpo III beta subunit – Rickettsia typhi
    • 6dlk - RrDpo III beta subunit – Rickettsia rickettsii
    • 6d47 - MmDpo III beta subunit – Mycobacterium marinum
    • 1jqj, 1jql - EcDpo III subunit (mutant)
    • 4tr6 - Pol III beta subunit – Bacillus subtilis
    • 3p16, 3rb9, 4tr7 - MtPol III beta subunit
    • 4tr8, 6ams - PsaPol III beta subunit – Pseudomonas aeruginosa
    • 6pth - PsaPol III beta subunit + griselimycin
    • 4s3i, 4rki - HpPol III beta subunit – Helicobacter pylori
    • 6aig - Dpo III beta subunit – Aeropyrum pernix
    • 6deg - BbDpo III beta subunit – Bartonella birtlesii
    • 7rzm - Dpo III beta subunit – Stenotrophomonas maltophilia
    • 8dt6 - Dpo III beta subunit – Elizabethkingia anophelis
  • DNA polymerase III subunit beta or sliding clamp complex
  • DNA polymerase III subunit gamma
    • 5c51, 5c52, 5c53 - hDpo III gamma subunit + DNA + nucleotide
    • 1njf, 1njg - EcDpo III subunit  N-terminal domains 1-2
    • 2gno - TmDpo III gamma subunit
    • 1xxh, 1jr3 - EcDpo III subunit ’
    • 1xxi - EcDpo III subunit ’ + nucleotide
  • DNA polymerase III subunit delta
    • 1jqj, 1jql - EcDpo III subunit (mutant)
    • 1a5t - EcDpo III subunit delta’
    • 1xxh, 1jr3 - EcDpo III subunit ’
    • 1xxi - EcDpo III subunit ’ + nucleotide
    • 3glh - EcDpo III subunit ’
    • 3glf - EcDpo III subunit ’ DNA
    • 3gli - EcDpo III subunit ’ DNA
    • 3glg - EcDpo III subunit ’mutant DNA
  • DNA polymerase III subunit epsilon
    • 2gui – EcDpo III subunit epsilon N-terminal
    • 1j53, 1j54 - EcDpo III subunit epsilon N-terminal exonuclease domain
    • 2ido - EcDpo III subunit + HOT protein
    • 4gx8 - EcDpo III ε subunit/ EcDpo III α subunit
    • 4gx9 - EcDpo III ε subunit/ EcDpo III α subunit (mutant)
    • 2xy8 - EcDpo III subunit epsilon, theta
  • DNA polymerase III subunit tau
    • 2aya - EcDpo III subunit tau
    • 3glh - EcDpo III subunit delta, delta', tau
    • 3glf - EcDpo III subunit delta, delta', tau DNA
    • 3glg - EcDpo III subunit delta, delta', tau (mutant) + DNA
  • DNA polymerase III subunit xi
    • 3gli - EcDpo III subunit delta, delta', tau, xi + DNA
  • DNA polymerase III subunit theta
  • DNA polymerase III subunit chi+phi
    • 1em8 - EcDpo III subunit chi, phi
    • 3sxu - EcDpo III subunit chi, phi + peptide
  • DNA polymerase IV
  • DNA polymerase V
    • 8gmt - EcPol V subumit umud + RecA + DNA + nucleotide – Cryo EM
  • DNA polymerase from enterobacteria phage T7
  • DNA polymerase
  • DNA polymerase alpha
    • 4e2i – hDpo α subunit β + large T antigen – human
    • 4y97 - hDpo α catalytic+B subunits
    • 5iud - hDpo α catalytic subunit + DNA
    • 6as7 - hDpo α catalytic subunit (mutant) + DNA
    • 4bpx - hDpo α catalytic subunit + DNA primase small subunit
    • 5exr - hDpo α catalytic+B subunits + DNA primase small+large subunits
    • 7opl - hDpo α catalytic+B subunits + DNA primase small+large subunits + Nsp1 – Cryo EM
    • 7u5c, 8d08 - hDpo α catalytic+B subunits + DNA primase small+large subunits + CST + DNA – Cryo EM
    • 4q5v - hDpo α catalytic subunit + DNA + RNA + aphidicolin
    • 4qcl, 7n2m - hDpo α catalytic subunit + DNA + RNA + nucleotide
    • 2keb - hDpo alphaB - NMR
    • 1n5g, 1k0p, 1k18 - hDpo alpha zinc finger domain – NMR
    • 7uy7, 7uy8l - Dpo α B subunit + DNA primase small+large subunits – Tetrahymena thermophile - Cryo EM
  • DNA polymerase beta

6ctq, 6ctp, 6cto, 6ctn, 6ctm, 6ctl, 6ctk, 6ctj, 6cti, 6crh, 6crc, 6crb, 6cr9, 6cr8, 6cr7, 6cr6, 6cr5, 6cr4, 6cr3, 6cpq, 6cly, 6bem, 6bel, 6ph6, 6u2o, 6u6b, 6uok, 6uol, 6uom, 6w2m, 7k96 - hDpo beta + DNA + nucleotide analog

  • DNA polymerase beta-like protein
  • DNA polymerase gamma
  • DNA polymerase delta
    • 3e0j - hDpo delta2+delta3
    • 3upq, 3uq0, 3uq2 - hDpo δ (mutant) + DNA
    • 4fo6 - hDpo δ (mutant) + DNA + nucleotide analog
    • 6s1m, 6s1n, 6s1o, 6tny - hDpo δ subunits catalytic+2+3+4 + PCNA + DNA + nucleotide analog – Cryo EM
    • 6tnz - hDpo δ subunits catalytic+2+3+4 + PCNA + FLAP endonuclease +DNA + nucleotide analog – Cryo EM
    • 7kc0 - hDpo δ + PCNA + POL31 + POL32 +DNA + nucleotide analog – Cryo EM
  • DNA polymerase epsilon
    • 5vbn - hDpo epsilon subunits A+2
  • DNA polymerase zeta
    • 3abd, 3abe - hDpo zeta catalytic subunit Rev3 + mitotic spindle assembly checkpoint protein Rev7
    • 6ekm, 6bi7, 6bcd, 6bc8 - hDpo zeta catalytic subunit + MAD2B
    • 3vu7, 4gk0, 6ws0 - hDpo zeta catalytic subunit + DNA repair protein Rev1 + MAD2B
    • 6ws5 - hDpo zeta catalytic subunit + DNA repair protein Rev1 + MAD2B + inhibitor
    • 4fjo, 4gk5 - hDpo kappa + hDpo zeta catalytic subunit + DNA repair protein Rev1 + MAD2B
    • 6v8p - hDpo zeta catalytic subunit + hDpo d subunits 3+small – Cryo EM
    • 6v93 - hDpo zeta catalytic+processivity subunits + hDpo d subunits 3+small + DNA + dCTP – Cryo EM
  • DNA polymerase eta
  • DNA polymerase iota
  • DNA polymerase kappa
  • DNA polymerase lambda
  • DNA polymerase mu or DNA-directed DNA/RNA polymerase
  • DNA polymerase nu
  • DNA polymerase chi or repair DNA polymerase chi
    • 2m2t – AsfvDpo X – African swine fever virus – NMR
    • 2m2u, 2m2v – AsfvDpo X + nucleotide – NMR
    • 2m2w – AsfvDpo X + nucleotide + DNA – NMR
    • 5xma, 5xm9, 5xm8 – AsfvDpo X + DNA
    • 2w9m – DrDpo X
  • DNA polymerase theta
    • 5a9j – hDpo helicase domain 1-894
    • 5a9f, 5aga – hDpo helicase domain + nucleotide
    • 4x0p, 4x0q – hDpo helicase domain + nucleotide + DNA
    • 6xbu, 7zus – hDpo polymerase domain 1819-2590 + nucleotide + DNA
    • 7zx0, 7zx1, 8e23, 8e24 – hDpo polymerase domain + inhibitor + DNA
    • 8ef9, 8efc, 8efk – Dpo polymerase domain + nucleotide + DNA – Lates calcarifer
  • DNA polymerase from yeast
    • 3oiq - yDpo alpha + cell division control protein 13
    • 3flo, 3lgb - yDpo alpha subunits A,B
    • 4b08, 4fvm - yDpo alpha subunit A
    • 4fxd, 4fyd - yDpo alpha subunit A + RNA + DNA
    • 5oki - yDpo alpha subunit A + DCC1 + chromosome fidelity protein
    • 3iay - yDpo delta catalytic subunit + DNA
    • 6p1h - yDpo delta catalytic+small+3 subunits + DNA + nucleotide – Cryo EM
    • 6wjv - yDpo II epsilon – Cryo EM
    • 6hv8 - yDpo II epsilon subunit A+B – Cryo EM
    • 3oha, 3ohb, 3mfh - yDpo epsilon (mutant) + DNA
    • 6i8a, 6qib, 7r3x, 7r3y - yDpo II epsilon subunit A + DNA + nucleotide 
    • 6g0a, 6fwk, 3mfi, 4m8o - yDpo II epsilon subunit A (mutant) + DNA + nucleotide derivative
    • 6s1c, 6s2e, 6s2f - yDpo II epsilon subunit A (mutant) + DCC1 + chromosome transmission fidelity proteins
    • 6hv9 - yDpo II epsilon subunit A+B + CMG + DNA + nucleotide – Cryo EM
    • 2r8j, 2r8k, 4ptf - yDpo epsilon catalytic domain + DNA + nucleotide 
    • 6h1v - yDpo epsilon catalytic domain (mutant) + DNA + nucleotide 
    • 2xgp, 2xgq, 2wtf - yDpo epsilon + DNA
    • 7lxd - yDpo eta catalytic+processivity subunits + hDpo d subunits 3+small – Cryo EM
    • 7s0t - yDpo eta catalytic+processivity subunits + hDpo d subunits 3+small + DNA – Cryo EM
    • 5y27, 5y26 - Dpo epsilon subunit D + transcription factor – fission yeast
    • 1jih, 5vtp – yDpo catalytic domain
  • DNA polymerase Rev1; Domains – BRCT 44-133; catalytic 330-833; UBM2 998-1040; C-terminal 1158-1251
    • 3gqc – hRev1 catalytic domain + DNA + nucleotide
    • 2ebw – hRev1 BRCT domain – NMR
    • 6axd – hRev1 UBM2 domain – NMR
    • 6asr – hRev1 UBM2 domain + ubiquitin
    • 5vzm – hRev1 UBM2 domain + ubiquitin - NMR
    • 2lsg, 2lsy – hRev1 C-terminal domain – NMR
    • 2n1g – hRev1 C-terminal domain + Dpo d subunit 3 – NMR
    • 2lsi – hRev1 C-terminal domain + hDpo kappa peptide
    • 2lsk – hRev1 C-terminal domain + hDpo kappa peptide
    • 4ext – hRev1 C-terminal domain + hDpo eta catalytic subunit peptide + MAD2B
    • 4gk5 – hRev1 C-terminal domain + hDpo kappa peptide + hDpo eta catalytic subunit peptide + MAD2B
    • 2lsj – mRev1 C-terminal domain + mDpo kappa peptide
    • 4fjo – mRev1 C-terminal domain + mDpo kappa peptide + MAD2B
    • 4id3, 5umv – yRev1 BRCT domain
    • 2m2i, 5vx7 – yRev1 BRCT domain – NMR
    • 6x70, 6x72, 6x73, 6x74, 6x76 – yRev1 catalytic domain + DNA
    • 3bjy, 2aq4, 3osp, 5wm1, 5wm8, 5wmb, 6x6z, 6x71, 6x75, 6x77 – yRev1 catalytic domain + DNA + nucleotide
  • Terminal deoxynucleotidyl transferase
    • 2coe – TdT BRCT domain – NMR
    • 1jms – mTdT catalytic domain + Mg
  • Terminal deoxynucleotidyl transferase binary complex
    • 4iqt, 4iqu, 4iqv, 4iqw – mTdT catalytic domain + inhibitor
    • 4i2i – mTdT catalytic domain + Mg + Zn + adenosine-pentaphosphate
    • 4i2j – mTdT catalytic domain + CTP + Zn
    • 1kej – mTdT catalytic domain + ATP derivative + Co
    • 4i2d – mTdT catalytic domain + ATP derivative + Mg
    • 4i29 – mTdT catalytic domain + AMP derivative + Mn
    • 4i2b – mTdT catalytic domain + AMPCPP + Mg
    • 4i2c – mTdT catalytic domain + AMPCPP + Mn
    • 4i2a – mTdT catalytic domain + UMP derivative + Mg
  • Terminal deoxynucleotidyl transferase ternary complex with DNA
    • 4i2e – mTdT catalytic domain + AMPCPP + Co + DNA
    • 4i2h – mTdT catalytic domain + AMPCPP + Zn + Mg + DNA
    • 4i27 – mTdT catalytic domain + TTP derivative + TMP + Mg + DNA
    • 1kdh – mTdT catalytic domain + UMP derivative + Mg + DNA
    • 4i28, 4i2f – mTdT catalytic domain + Mg + Zn + DNA
    • 4i2g – mTdT catalytic domain + Mg + Co + DNA

}}

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Michal Harel, Joel L. Sussman

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