SMTL ID : 4flt.1

Pyrococcus abyssi B family DNA polymerase bound to a dsDNA, in edition mode

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 1 residues within 4Å: Chain A: E.273 No protein-ligand interaction detected (PLIP) MG.2: 5 residues within 4Å: Chain A: D.163, I.164, E.165, D.337 Chain B: G.11 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.163, A:E.165, A:D.337

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.3: 4 residues within 4Å: Chain A: D.28, Y.29, K.262 Chain C: G.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.29, A:Y.29, A:K.262 Water bridges: A:D.28 Salt bridges: A:K.262

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 8 residues within 4Å: Chain A: D.135, N.373, E.376, W.377, L.380, K.393, R.526 Chain C: G.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.135, A:N.373, A:E.376, A:K.393, A:R.526, A:R.526

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gouge, J. et al., Molecular Recognition of Canonical and Deaminated Bases by P. abyssi Family B DNA Polymerase. J.Mol.Biol. (2012)

Release Date

2012-08-29

Peptides

DNA polymerase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA polymerase 1

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