SMTL ID : 8b77.1

The crystal structure of N828V variant of DNA Pol Epsilon containing dATP in the polymerase active site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

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

DTP.1: 17 residues within 4Å: Chain A: D.645, V.646, A.647, S.648, M.649, Y.650, P.651, R.786, K.790, K.829, V.833, Y.836, D.882 Chain B: C.11 Chain C: T.5, G.6 Ligands: CA.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.650, A:V.833 Hydrogen bonds: A:V.646, A:S.648, A:M.649, A:Y.650 Salt bridges: A:R.786, A:K.790, A:K.829, A:K.829, A:K.829

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.645, V.646, D.882 Ligands: DTP.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.645, A:V.646, A:D.882

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Parkash, V. et al., A sensor complements the steric gate when DNA polymerase epsilon discriminates ribonucleotides. Nucleic Acids Res. (2023)

Release Date

2023-10-25

Peptides

DNA polymerase epsilon catalytic subunit A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA polymerase epsilon catalytic subunit A

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