SMTL ID : 4yr2.1

Mutant Human DNA Polymerase Eta R61M Inserting dATP Opposite an 8-Oxoguanine Lesion

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

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

DA-DG-DC-DG-DT-DC-DA-DT.1: 26 residues within 4Å: Chain A: S.116, D.118, E.119, K.227, R.259, S.260, L.261, G.262, G.263, K.264, L.265, L.384, R.385, R.386, C.387 Chain B: G.4, A.5, T.6, G.7, A.8, C.9, G.10, C.11, T.12 Ligands: DTP.2, CA.4 Protein-ligand interaction information (PLIP) not available

1 x DTP: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE(Non-covalent)

DTP.2: 21 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, M.64, I.117, D.118, E.119, K.234 Chain B: T.3, G.4, A.5 Ligands: DA-DG-DC-DG-DT-DC-DA-DT.1, CA.3, CA.4 12 PLIP interactions: 12 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:D.18, A:R.58, A:R.58, A:R.58, A:R.58 Salt bridges: A:R.58, A:R.58

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: D.16, M.17, D.118 Ligands: DTP.2, CA.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.16, A:M.17, A:D.118 CA.4: 7 residues within 4Å: Chain A: D.16, S.116, D.118, E.119 Ligands: DA-DG-DC-DG-DT-DC-DA-DT.1, DTP.2, CA.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.16, A:D.118, A:E.119

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 4 residues within 4Å: Chain A: G.274, I.275, E.276, E.280 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.276, A:E.276, A:E.280 Water bridges: A:G.274 GOL.6: 5 residues within 4Å: Chain A: P.247, F.250, S.251, G.279, E.280 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.250 Water bridges: A:T.282

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Su, Y. et al., Roles of Residues Arg-61 and Gln-38 of Human DNA Polymerase eta in Bypass of Deoxyguanosine and 7,8-Dihydro-8-oxo-2'-deoxyguanosine. J.Biol.Chem. (2015)

Release Date

2015-05-13

Peptides

DNA polymerase eta: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA polymerase eta

Related Entries With Identical Sequence