SMTL ID : 3q8r.1

Human DNA polymerase iota incorporating dGTP opposite 8-oxo-guanine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

monomer

Ligands

1 x DA- DG- DG- DA- DC- DC- DC: DNA (5'-D(P*AP*GP*GP*AP*CP*CP*C)-3')(Non-covalent)

DA-DG-DG-DA-DC-DC-DC.1: 24 residues within 4Å: Chain A: L.123, E.127, K.207, I.239, P.240, G.241, I.242, G.243, Y.244, K.245, T.246, E.358, S.359, R.360, Q.361 Chain B: G.5, G.6, G.7, T.8, C.9, C.10, T.11 Ligands: DGT.2, MG.3 Protein-ligand interaction information (PLIP) not available

1 x DGT: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

DGT.2: 16 residues within 4Å: Chain A: D.34, L.35, D.36, C.37, F.38, Y.39, T.65, Y.68, R.71, D.126, E.127, K.214 Chain B: G.4, G.5 Ligands: DA-DG-DG-DA-DC-DC-DC.1, MG.4 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.39 Hydrogen bonds: A:D.36, A:C.37, A:F.38, A:Y.39, A:T.65, A:Y.68, A:Y.68, A:D.126 Water bridges: A:K.214 Salt bridges: A:R.71, A:K.214

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: K.237, I.239, P.240, I.242 Ligands: DA-DG-DG-DA-DC-DC-DC.1 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:K.237, A:I.239, A:I.242, H2O.3, H2O.6 MG.4: 3 residues within 4Å: Chain A: D.34, L.35 Ligands: DGT.2 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.34, A:L.35

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kirouac, K.N. et al., Unique active site promotes error-free replication opposite an 8-oxo-guanine lesion by human DNA polymerase iota. Proc.Natl.Acad.Sci.USA (2011)

Release Date

2011-02-23

Peptides

DNA polymerase iota: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

DNA polymerase iota

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