SMTL ID : 4i9l.1

Crystal structure of the D714A mutant of RB69 DNA polymerase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

1 x GMP: GUANOSINE(Non-covalent)

GMP.1: 13 residues within 4Å: Chain A: Y.33, S.36, F.38, Y.49, G.84, M.85, A.91, D.95, F.370, K.374, K.378, V.379, I.380 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.33, A:Y.33, A:S.36, A:M.85, A:K.378, A:K.378, A:I.380

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 5 residues within 4Å: Chain A: F.123, P.124, E.125, K.130, H.131 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:F.123, A:E.125 Water bridges: A:S.119, A:D.121 Salt bridges: A:K.130, A:H.131 SO4.3: 2 residues within 4Å: Chain A: R.27, T.28 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.28 Salt bridges: A:R.27 SO4.4: 3 residues within 4Å: Chain A: P.802, F.803, H.804 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.783, A:F.803, A:H.804 Salt bridges: A:H.804

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 3 residues within 4Å: Chain A: F.282, T.283, R.338 Ligand excluded by PLIP CL.6: 2 residues within 4Å: Chain A: R.482, K.560 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain A: Y.720, A.721 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jacewicz, A. et al., A Remote Palm Domain Residue of RB69 DNA Polymerase Is Critical for Enzyme Activity and Influences the Conformation of the Active Site. Plos One (2013)

Release Date

2013-10-09

Peptides

DNA polymerase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA polymerase