SMTL ID : 3snn.1

RB69 DNA Polymerase (L561A/S565G/Y567A) Ternary Complex with dCTP Opposite dG in the presence of Mg2+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

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

DCP.1: 16 residues within 4Å: Chain A: G.4, G.5 Chain B: C.13 Chain C: D.411, L.412, T.413, S.414, L.415, Y.416, R.482, K.560, N.564, T.622, D.623 Ligands: MG.2, MG.3 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:Y.416 Hydrogen bonds: C:L.412, C:S.414, C:L.415, C:Y.416, C:N.564, C:N.564, C:D.623 Water bridges: C:R.482, C:R.482, C:R.482, C:K.486, C:K.560 Salt bridges: C:R.482, C:K.486, C:K.560, C:K.560, C:K.560

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain C: D.411, L.412, D.623 Ligands: DCP.1, MG.3 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.411, C:L.412, C:D.623 MG.3: 5 residues within 4Å: Chain B: C.13 Chain C: D.411, D.623 Ligands: DCP.1, MG.2 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.411, C:D.623, H2O.4, H2O.20

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xia, S. et al., Structural Insights into Complete Metal Ion Coordination from Ternary Complexes of B Family RB69 DNA Polymerase. Biochemistry (2011)

Release Date

2011-10-12

Peptides

DNA polymerase: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

DNA polymerase

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