DNA polymerase 3D structures
From Proteopedia
(Difference between revisions)
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*DNA polymerase iota | *DNA polymerase iota | ||
- | **[[3q8r]], [[3q8s]], [[3h4b]], [[3h4d]], [[3gv5]], [[3gv7]], [[3gv8]], [[3epg]], [[3epi]], [[2fll]], [[2fln]], [[2flp]], [[2dpi]], [[2dpj]], [[2alz]], [[1zet]], [[1t3n]], [[4ebc]], [[4ebd]], [[4ebe]], [[4fs1]], [[4fs2]], [[4eyh]], [[4eyi]], [[3g6v]], [[3g6x]], [[3g6y]], [[5ulx]], [[5ulw]], [[5kt7]], [[5kt6]], [[5kt5]], [[5kt4]], [[5kt3]], [[5kt2]] - hDpo | + | **[[3q8r]], [[3q8s]], [[3h4b]], [[3h4d]], [[3gv5]], [[3gv7]], [[3gv8]], [[3epg]], [[3epi]], [[2fll]], [[2fln]], [[2flp]], [[2dpi]], [[2dpj]], [[2alz]], [[1zet]], [[1t3n]], [[4ebc]], [[4ebd]], [[4ebe]], [[4fs1]], [[4fs2]], [[4eyh]], [[4eyi]], [[3g6v]], [[3g6x]], [[3g6y]], [[5ulx]], [[5ulw]], [[5kt7]], [[5kt6]], [[5kt5]], [[5kt4]], [[5kt3]], [[5kt2]] - hDpo iota + DNA + nucleotide<br /> |
- | **[[3ngd]], [[3osn]], [[3h40]] - hDpo | + | **[[3ngd]], [[3osn]], [[3h40]] - hDpo iota catalytic fragment + DNA <br /> |
- | **[[2ktf]] - hDpo | + | **[[2ktf]] - hDpo iota + ubiquitin<br /> |
- | **[[2l0f]], [[2l0g]] - | + | **[[2l0f]], [[2l0g]] - hDpo iota + ubiquitin – NMR<br /> |
- | **[[2khu]] - | + | **[[2khu]] - hDpo iota ubiquitin binding motif – NMR<br /> |
- | **[[2khw]] - | + | **[[2khw]] - hDpo iota ubiquitin binding motif + ubiquitin – NMR<br /> |
- | **[[2kwu]], [[2kwv]] - mDpo | + | **[[2kwu]], [[2kwv]] - mDpo iota C-terminal + ubiquitin - NMR<br /> |
- | **[[3ai4]] - mDpo | + | **[[3ai4]] - mDpo iota/yEGFP<br /> |
*DNA polymerase kappa | *DNA polymerase kappa | ||
- | **[[1t94]] - hDpo | + | **[[1t94]] - hDpo kappa<br /> |
- | **[[3in5]], [[5w2c]], [[5w2a]], [[5t14]] - hDpo | + | **[[3in5]], [[5w2c]], [[5w2a]], [[5t14]] - hDpo kappa + DNA<br /> |
- | **[[2w7o]], [[2w7p]], [[2oh2]], [[3pzp]], [[4u6p]], [[6cst]], [[6bs1]], [[6brx]], [[5w2a]], [[5w2c]] - hDpo | + | **[[2w7o]], [[2w7p]], [[2oh2]], [[3pzp]], [[4u6p]], [[6cst]], [[6bs1]], [[6brx]], [[5w2a]], [[5w2c]] - hDpo kappa + DNA + nucleotide<br /> |
- | **[[7nv0]], [[7nv1]] - hDpo | + | **[[7nv0]], [[7nv1]] - hDpo kappa + PCNA + DNA + nucleotide<br /> |
- | **[[4u7c]], [[4y6p]] - hDpo | + | **[[4u7c]], [[4y6p]] - hDpo kappa + DNA + benzopyrene derivative<br /> |
- | **[[2lsi]] - hDpo | + | **[[2lsi]] - hDpo kappa peptide + hRev1<br /> |
- | **[[2lsk]] - mDpo | + | **[[2lsk]] - mDpo lappa + DNA repair protein Rev1<br /> |
*DNA polymerase lambda | *DNA polymerase lambda | ||
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*DNA polymerase mu or DNA-directed DNA/RNA polymerase | *DNA polymerase mu or DNA-directed DNA/RNA polymerase | ||
- | **[[2htf]], [[2dun]] - hDpo | + | **[[2htf]], [[2dun]] - hDpo mu BRCT domain residues 24-143 – NMR<br /> |
- | **[[4lzd]] - hDpo | + | **[[4lzd]] - hDpo mu residues 132-494 <br /> |
- | **[[4lzg]], [[5tyz]], [[5tyy]], [[5tyx]], [[5tyw]], [[5tyv]], [[5tyu]], [[5tyg]], [[5tyf]], [[5tye]], [[5tyd]], [[5tyc]], [[5tyb]], [[5txz]], [[5txx]], [[5tws]], [[5twr]], [[5twq]], [[5twp]], [[5zlc]] - hDpo | + | **[[4lzg]], [[5tyz]], [[5tyy]], [[5tyx]], [[5tyw]], [[5tyv]], [[5tyu]], [[5tyg]], [[5tyf]], [[5tye]], [[5tyd]], [[5tyc]], [[5tyb]], [[5txz]], [[5txx]], [[5tws]], [[5twr]], [[5twq]], [[5twp]], [[5zlc]] - hDpo mu residues 132-494 + DNA <br /> |
- | **[[4yd2]], [[4ycx]] - hDpo | + | **[[4yd2]], [[4ycx]] - hDpo mu residues 132-494 (mutant) + DNA <br /> |
- | **[[6ak5]] - hDpo | + | **[[6ak5]] - hDpo mu residues 132-397+411-494 + nucleotide derivative<br /> |
- | **[[6ipn]], [[6ipm]], [[6ipl]], [[6ipk]], [[6ipj]], [[6ipi]], [[6iph]], [[6aec]], [[6aeh]], [[6ak6]] - hDpo | + | **[[6ipn]], [[6ipm]], [[6ipl]], [[6ipk]], [[6ipj]], [[6ipi]], [[6iph]], [[6aec]], [[6aeh]], [[6ak6]] - hDpo mu residues 132-397+411-494 (mutant) + nucleotide derivative<br /> |
- | **[[6vez]], [[6vf0]], [[6vf1]], [[6vf2]], [[6vf3]], [[6vf4]], [[6vf5]], [[6vf6]], [[6vf7]], [[6vf8]], [[6vf9]], [[6vfa]], [[6vfb]], [[6vfc]], [[7co6]], [[7co8]], [[7co9]], [[7coa]], [[7cob]], [[7cod]], [[7kss]], [[7kst]], [[7ksu]], [[7ksv]], [[7ksw]], [[7ksx]], [[7ksy]], [[7ksz]], [[7kt0]], [[7kt1]], [[7kt2]], [[7kt3]], [[7kt4]], [[7kt5]], [[7kt6]], [[7kt7]], [[7kt9]], [[7kta]], [[7ktb]], [[7ktc]], [[7ktd]], [[7kte]], [[7ktf]], [[7ktg]], [[7kth]], [[7kti]], [[7ktj]], [[7ktk]], [[7ktl]], [[7ktm]], [[7ktn]] - hDpo | + | **[[6vez]], [[6vf0]], [[6vf1]], [[6vf2]], [[6vf3]], [[6vf4]], [[6vf5]], [[6vf6]], [[6vf7]], [[6vf8]], [[6vf9]], [[6vfa]], [[6vfb]], [[6vfc]], [[7co6]], [[7co8]], [[7co9]], [[7coa]], [[7cob]], [[7cod]], [[7kss]], [[7kst]], [[7ksu]], [[7ksv]], [[7ksw]], [[7ksx]], [[7ksy]], [[7ksz]], [[7kt0]], [[7kt1]], [[7kt2]], [[7kt3]], [[7kt4]], [[7kt5]], [[7kt6]], [[7kt7]], [[7kt9]], [[7kta]], [[7ktb]], [[7ktc]], [[7ktd]], [[7kte]], [[7ktf]], [[7ktg]], [[7kth]], [[7kti]], [[7ktj]], [[7ktk]], [[7ktl]], [[7ktm]], [[7ktn]] - hDpo mu + DNA + nucleotide derivative<br /> |
- | **[[4m04]], [[4m0a]], [[4yd1]], [[6ipg]], [[6ipf]], [[6ipe]], [[6ipd]], [[5vz7]], [[5vz8]], [[5vz9]], [[5vza]], [[5vzb]], [[5vzc]], [[5vzd]], [[5vze]], [[5vzf]], [[5vzg]], [[5vzh]], [[5vzi]], [[6ak8]], [[6ak9]], [[6akh]], [[6p1m]], [[6p1n]], [[6p1o]], [[6p1p]], [[6p1q]], [[6p1r]], [[6p1s]], [[6p1t]], [[6p1u]], [[6p1v]], [[6p1w]], [[7coc]] - hDpo | + | **[[4m04]], [[4m0a]], [[4yd1]], [[6ipg]], [[6ipf]], [[6ipe]], [[6ipd]], [[5vz7]], [[5vz8]], [[5vz9]], [[5vza]], [[5vzb]], [[5vzc]], [[5vzd]], [[5vze]], [[5vzf]], [[5vzg]], [[5vzh]], [[5vzi]], [[6ak8]], [[6ak9]], [[6akh]], [[6p1m]], [[6p1n]], [[6p1o]], [[6p1p]], [[6p1q]], [[6p1r]], [[6p1s]], [[6p1t]], [[6p1u]], [[6p1v]], [[6p1w]], [[7coc]] - hDpo mu residues 132-494+411-494 (mutant) + DNA + nucleotide derivative<br /> |
- | **[[2ihm]] - mDpo | + | **[[2ihm]] - mDpo malpha catalytic domain + DNA <br /> |
*DNA polymerase nu | *DNA polymerase nu | ||
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*DNA polymerase from yeast | *DNA polymerase from yeast | ||
- | **[[3oiq]] - yDpo | + | **[[3oiq]] - yDpo alpha + cell division control protein 13 <br /> |
- | **[[3flo]], [[3lgb]] - yDpo | + | **[[3flo]], [[3lgb]] - yDpo alpha subunits A,B<br /> |
- | **[[8foc]], [[8fod]], [[8foe]] - yDpo | + | **[[8foc]], [[8fod]], [[8foe]] - yDpo alpha subunits A,B + primase small+large subunits – Cryo EM<br /> |
- | **[[8fok]] - yDpo | + | **[[8fok]] - yDpo alpha subunits A,B + primase small+large subunits + DNA – Cryo EM<br /> |
- | **[[4b08]], [[4fvm]] - yDpo | + | **[[4b08]], [[4fvm]] - yDpo alpha subunit A<br /> |
- | **[[4fxd]], [[4fyd]] - yDpo | + | **[[4fxd]], [[4fyd]] - yDpo alpha subunit A + RNA + DNA<br /> |
- | **[[5oki]] - yDpo | + | **[[5oki]] - yDpo alpha subunit A + DCC1 + chromosome fidelity protein<br /> |
**[[9c51]], [[9c52]], [[9c53]] – yDpo gamma catalytic+small+3 subunits + DNA + nucleotide – Cryo EM<br /> | **[[9c51]], [[9c52]], [[9c53]] – yDpo gamma catalytic+small+3 subunits + DNA + nucleotide – Cryo EM<br /> | ||
**[[9d2i]] – yDpo gamma catalytic subunit + DNA + nucleotide – Cryo EM<br /> | **[[9d2i]] – yDpo gamma catalytic subunit + DNA + nucleotide – Cryo EM<br /> | ||
- | **[[3iay]] - yDpo | + | **[[3iay]] - yDpo delta catalytic subunit + DNA<br /> |
- | **[[6p1h]] - yDpo | + | **[[6p1h]] - yDpo delta catalytic+small+3 subunits + DNA + nucleotide – Cryo EM<br /> |
- | **[[6wjv]] - yDpo II | + | **[[6wjv]] - yDpo II epsilon – Cryo EM<br /> |
- | **[[6hv8]] - yDpo II | + | **[[6hv8]] - yDpo II epsilon subunit A+B – Cryo EM<br /> |
- | **[[8xgc]] - yDpo II | + | **[[8xgc]] - yDpo II epsilon in replication origin complex – Cryo EM<br /> |
- | **[[3oha]], [[3ohb]], [[3mfh]] - yDpo | + | **[[3oha]], [[3ohb]], [[3mfh]] - yDpo epsilon (mutant) + DNA<br /> |
- | **[[6i8a]], [[6qib]], [[7r3x]], [[7r3y]] - yDpo II | + | **[[6i8a]], [[6qib]], [[7r3x]], [[7r3y]] - yDpo II epsilon subunit A + DNA + nucleotide <br /> |
- | **[[6g0a]], [[6fwk]], [[3mfi]], [[4m8o]] - yDpo II | + | **[[6g0a]], [[6fwk]], [[3mfi]], [[4m8o]] - yDpo II epsilon subunit A (mutant) + DNA + nucleotide derivative<br /> |
- | **[[6s1c]], [[6s2e]], [[6s2f]] - yDpo II | + | **[[6s1c]], [[6s2e]], [[6s2f]] - yDpo II epsilon subunit A (mutant) + DCC1 + chromosome transmission fidelity proteins<br /> |
- | **[[6hv9]] - yDpo II | + | **[[6hv9]] - yDpo II epsilon subunit A+B + CMG + DNA + nucleotide – Cryo EM<br /> |
- | **[[2r8j]], [[2r8k]], [[4ptf]] - yDpo | + | **[[2r8j]], [[2r8k]], [[4ptf]] - yDpo epsilon catalytic domain + DNA + nucleotide <br /> |
- | **[[6h1v]], [[8b67]], [[8b6k]], [[8b77]], [[8b79]] - yDpo | + | **[[6h1v]], [[8b67]], [[8b6k]], [[8b77]], [[8b79]] - yDpo epsilon catalytic domain (mutant) + DNA + nucleotide <br /> |
- | **[[2xgp]], [[2xgq]], [[2wtf]] - yDpo | + | **[[2xgp]], [[2xgq]], [[2wtf]] - yDpo epsilon + DNA<br /> |
- | **[[9b8r]] - yDpo | + | **[[9b8r]] - yDpo epsilon + DNA – Cryo EM<br /> |
- | **[[7lxd]] - yDpo | + | **[[7lxd]] - yDpo zeta catalytic+processivity subunits + hDpo delta subunits 3+small – Cryo EM<br /> |
- | **[[7s0t]] - yDpo | + | **[[7s0t]] - yDpo zeta catalytic+processivity subunits + hDpo delta subunits 3+small + DNA – Cryo EM<br /> |
- | **[[8tlq]] - yDpo | + | **[[8tlq]] - yDpo zeta catalytic+processivity subunits + hDpo delta subunit 3 + DNA + dCTP – Cryo EM<br /> |
- | **[[5y27]], [[5y26]] - Dpo | + | **[[5y27]], [[5y26]] - Dpo epsilon subunit D + transcription factor – fission yeast<br /> |
- | **[[1jih]], [[5vtp]] – yDpo | + | **[[1jih]], [[5vtp]] – yDpo nu catalytic domain<br /> |
**[[8b9b]], [[8kg6]], [[8kg8]], [[8kg9]], [[8w7m]], [[8w7s]] - yDpo III in replisome complex – Cryo EM<br /> | **[[8b9b]], [[8kg6]], [[8kg8]], [[8kg9]], [[8w7m]], [[8w7s]] - yDpo III in replisome complex – Cryo EM<br /> | ||
Revision as of 07:48, 27 April 2025
3D Structures of DNA polymerase
Updated on 27-April-2025
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
catalytic+2+3+4 + PCNA + DNA + nucleotide analog – Cryo EM
Terminal deoxynucleotidyl transferase binary complex