SMTL ID : 3gv7.1

Human DNA polymerase iota in complex with T template DNA and incoming dTTP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x DA- DT- DG- DG- DG- DT- DC- DC- DT: 5'-D(P*AP*TP*GP*GP*GP*TP*CP*CP*T)-3'(Non-covalent)

DA-DT-DG-DG-DG-DT-DC-DC-DT.1: 27 residues within 4Å: Chain A: Q.59, K.60, Y.61, L.62, V.64, L.78, E.97, L.99, R.103, P.299, Q.300, S.301, F.302, S.303, E.304, E.305, S.307, R.331, R.347 Ligands: DA-DG-DG-DA-DC-DC-DC.2, DA-DG-DG-DA-DC-DC-DC.2, DA-DG-DG-DA-DC-DC-DC.2, DA-DG-DG-DA-DC-DC-DC.2, DA-DG-DG-DA-DC-DC-DC.2, DA-DG-DG-DA-DC-DC-DC.2, DA-DG-DG-DA-DC-DC-DC.2, TTP.4 Protein-ligand interaction information (PLIP) not available

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

DA-DG-DG-DA-DC-DC-DC.2: 23 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, R.343, E.358, S.359, R.360 Ligands: DA-DT-DG-DG-DG-DT-DC-DC-DT.1, DA-DT-DG-DG-DG-DT-DC-DC-DT.1, DA-DT-DG-DG-DG-DT-DC-DC-DT.1, DA-DT-DG-DG-DG-DT-DC-DC-DT.1, DA-DT-DG-DG-DG-DT-DC-DC-DT.1, DA-DT-DG-DG-DG-DT-DC-DC-DT.1, DA-DT-DG-DG-DG-DT-DC-DC-DT.1, TTP.4 Protein-ligand interaction information (PLIP) not available

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: D.34, L.35, D.126 Ligands: TTP.4, MG.5 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.34, A:L.35, A:D.126, H2O.3 MG.5: 3 residues within 4Å: Chain A: D.34 Ligands: MG.3, TTP.4 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.34, H2O.10

1 x TTP: THYMIDINE-5'-TRIPHOSPHATE(Non-covalent)

TTP.4: 20 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, L.78, D.126, E.127, K.214 Ligands: DA-DT-DG-DG-DG-DT-DC-DC-DT.1, DA-DT-DG-DG-DG-DT-DC-DC-DT.1, DA-DG-DG-DA-DC-DC-DC.2, MG.3, MG.5 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:Y.39 Hydrogen bonds: A:L.35, A:C.37, A:F.38, A:Y.39, A:Y.39, A:T.65, A:Y.68 Water bridges: A:D.34, A:D.36, A:D.36, A:Q.59, A:E.127 Salt bridges: A:R.71, A:R.71, A:K.77, A:K.77, A:K.77, A:K.214

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kirouac, K.N. et al., Structural basis of error-prone replication and stalling at a thymine base by human DNA polymerase iota. Embo J. (2009)

Release Date

2009-06-02

Peptides

DNA polymerase iota: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

DNA polymerase iota

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