- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x DA- DG- DG- DA- DC- DC- DOC: 5'-D(*AP*GP*GP*AP*CP*CP*(DOC))-3'(Non-covalent)
- 2 x DT- EDA- DG- DG- DG- DT- DC- DC- DT: 5'-D(*TP*(EDA)P*GP*GP*GP*TP*CP*CP*T)-3'(Non-covalent)
DT-EDA-DG-DG-DG-DT-DC-DC-DT.2: 31 residues within 4Å:- Chain A: Q.59, K.60, Y.61, L.62, V.64, E.97, L.99, R.103, P.299, Q.300, S.301, F.302, S.303, E.304, E.305, S.307, K.309, R.331
- Chain B: Q.361, C.362, P.363
- Ligands: DA-DG-DG-DA-DC-DC-DOC.1, DA-DG-DG-DA-DC-DC-DOC.1, DA-DG-DG-DA-DC-DC-DOC.1, DA-DG-DG-DA-DC-DC-DOC.1, DA-DG-DG-DA-DC-DC-DOC.1, DA-DG-DG-DA-DC-DC-DOC.1, DA-DG-DG-DA-DC-DC-DOC.1, DCP.5, DA-DG-DG-DA-DC-DC-DOC.6, DT-EDA-DG-DG-DG-DT-DC-DC-DT.7
Protein-ligand interaction information (PLIP) not availableDT-EDA-DG-DG-DG-DT-DC-DC-DT.7: 31 residues within 4Å:- Chain A: Q.361, C.362, P.363
- Chain B: Q.59, K.60, Y.61, L.62, V.64, E.97, L.99, R.103, P.299, Q.300, S.301, F.302, S.303, E.304, E.305, S.307, K.309, R.331
- Ligands: DA-DG-DG-DA-DC-DC-DOC.1, DT-EDA-DG-DG-DG-DT-DC-DC-DT.2, DA-DG-DG-DA-DC-DC-DOC.6, DA-DG-DG-DA-DC-DC-DOC.6, DA-DG-DG-DA-DC-DC-DOC.6, DA-DG-DG-DA-DC-DC-DOC.6, DA-DG-DG-DA-DC-DC-DOC.6, DA-DG-DG-DA-DC-DC-DOC.6, DA-DG-DG-DA-DC-DC-DOC.6, DCP.10
Protein-ligand interaction information (PLIP) not available- 4 x MG: MAGNESIUM ION(Non-covalent)
MG.3: 5 residues within 4Å:- Chain A: D.34, L.35, D.126
- Ligands: MG.4, DCP.5
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:D.34, A:L.35, A:D.126
MG.4: 6 residues within 4Å:- Chain A: D.34, D.126, E.127
- Ligands: DA-DG-DG-DA-DC-DC-DOC.1, MG.3, DCP.5
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.34, A:D.34, A:E.127, H2O.41
MG.8: 5 residues within 4Å:- Chain B: D.34, L.35, D.126
- Ligands: MG.9, DCP.10
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:D.34, B:L.35, B:D.126
MG.9: 6 residues within 4Å:- Chain B: D.34, D.126, E.127
- Ligands: DA-DG-DG-DA-DC-DC-DOC.6, MG.8, DCP.10
4 PLIP interactions:3 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:D.34, B:D.34, B:E.127, H2O.163
- 2 x DCP: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE(Non-covalent)
DCP.5: 18 residues within 4Å:- Chain A: D.34, L.35, D.36, C.37, F.38, Y.39, V.64, T.65, Y.68, R.71, K.77, D.126, K.214
- Ligands: DA-DG-DG-DA-DC-DC-DOC.1, DT-EDA-DG-DG-DG-DT-DC-DC-DT.2, DT-EDA-DG-DG-DG-DT-DC-DC-DT.2, MG.3, MG.4
14 PLIP interactions:14 interactions with chain A- Hydrophobic interactions: A:Y.39
- Hydrogen bonds: A:L.35, A:C.37, A:F.38, A:Y.39, A:T.65
- Water bridges: A:F.125, A:K.214
- Salt bridges: A:R.71, A:R.71, A:K.77, A:K.77, A:K.77, A:K.214
DCP.10: 18 residues within 4Å:- Chain B: D.34, L.35, D.36, C.37, F.38, Y.39, V.64, T.65, Y.68, R.71, K.77, D.126, K.214
- Ligands: DA-DG-DG-DA-DC-DC-DOC.6, DT-EDA-DG-DG-DG-DT-DC-DC-DT.7, DT-EDA-DG-DG-DG-DT-DC-DC-DT.7, MG.8, MG.9
17 PLIP interactions:17 interactions with chain B- Hydrophobic interactions: B:Y.39
- Hydrogen bonds: B:L.35, B:C.37, B:F.38, B:Y.39, B:Y.39, B:T.65, B:T.65, B:Y.68
- Water bridges: B:F.125, B:K.214
- Salt bridges: B:R.71, B:R.71, B:K.77, B:K.77, B:K.77, B:K.214
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Nair, D.T. et al., Hoogsteen base pair formation promotes synthesis opposite the 1,N(6)-ethenodeoxyadenosine lesion by human DNA polymerase iota. Nat.Struct.Mol.Biol. (2006)
- Release Date
- 2006-07-04
- Peptides
- DNA polymerase iota: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x DA- DG- DG- DA- DC- DC- DOC: 5'-D(*AP*GP*GP*AP*CP*CP*(DOC))-3'(Non-covalent)
- 2 x DT- EDA- DG- DG- DG- DT- DC- DC- DT: 5'-D(*TP*(EDA)P*GP*GP*GP*TP*CP*CP*T)-3'(Non-covalent)
- 4 x MG: MAGNESIUM ION(Non-covalent)
- 2 x DCP: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Nair, D.T. et al., Hoogsteen base pair formation promotes synthesis opposite the 1,N(6)-ethenodeoxyadenosine lesion by human DNA polymerase iota. Nat.Struct.Mol.Biol. (2006)
- Release Date
- 2006-07-04
- Peptides
- DNA polymerase iota: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A