SMTL ID : 5dqi.1

Crystal Structure of Human DNA Polymerase Eta Extending an O4-Ethylthymidine : dA Pair By Inserting dCTP Opposite dG

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

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

DA-DG-DC-DG-DT-DC-DA-DA-DC.1: 31 residues within 4Å: Chain A: R.114, A.115, S.116, I.117, D.118, E.119, K.227, I.258, R.259, S.260, L.261, G.262, G.263, K.264, L.265, R.380, L.384, R.385, R.386, C.387 Chain B: G.4, X.5, T.6, G.7, A.8, C.9, G.10, C.11, T.12 Ligands: DCP.2, CA.4 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:Q.41, A:Q.41, A:Q.41, A:I.50, A:S.65, A:W.67, A:R.96, A:K.320, A:T.321, A:G.323, A:S.325, A:N.327 Salt bridges: A:K.89, A:R.96, A:K.296, A:K.296, A:K.314, A:R.316, A:K.320, A:R.354

1 x DCP: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE(Non-covalent)

DCP.2: 19 residues within 4Å: Chain A: D.16, M.17, D.18, C.19, F.20, F.21, I.51, A.52, Y.55, R.58, R.64, I.117, D.118, K.234 Chain B: G.4 Ligands: DA-DG-DC-DG-DT-DC-DA-DA-DC.1, DA-DG-DC-DG-DT-DC-DA-DA-DC.1, CA.3, CA.4 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.21 Hydrogen bonds: A:C.19, A:F.20, A:F.21, A:Y.55 Water bridges: A:R.58, A:R.58, A:R.58, A:R.58 Salt bridges: A:R.58, A:R.64, A:R.64, A:K.234

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: D.16, M.17, D.118 Ligands: DCP.2, CA.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.16, A:D.16, A:M.17, A:D.118 CA.4: 8 residues within 4Å: Chain A: D.16, S.116, D.118, E.119 Ligands: DA-DG-DC-DG-DT-DC-DA-DA-DC.1, DA-DG-DC-DG-DT-DC-DA-DA-DC.1, DCP.2, CA.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.16, A:D.118, A:E.119, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

O'Flaherty, D.K. et al., Lesion Orientation ofO4-Alkylthymidine Influences Replication by Human DNA Polymeraseeta. Chem Sci (2016)

Release Date

2016-08-10

Peptides

DNA polymerase eta: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA polymerase eta

Related Entries With Identical Sequence