SMTL ID : 4fm0.1

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.12 Å

Oligo State

monomer

Ligands

1 x DC- DG- DA- DT- DC- DA- DC- DG: Primer strand(Non-covalent)

DC-DG-DA-DT-DC-DA-DC-DG.1: 22 residues within 4Å: Chain A: A.7, C.8, G.9, T.10, G.11, A.12, T.13, C.14, G.15 Chain B: F.283, R.287, R.634, R.635, D.636, E.686, Q.687, T.689, R.690, Y.695, K.696, A.697, H.701 Protein-ligand interaction information (PLIP) not available

2 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.2: 1 residues within 4Å: Chain A: G.3 No protein-ligand interaction detected (PLIP) MG.3: 4 residues within 4Å: Chain B: D.163, I.164, E.165, D.337 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.163, B:E.165, B:D.337, H2O.3

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 9 residues within 4Å: Chain A: G.5 Chain B: D.135, I.136, P.137, N.373, E.376, W.377, L.380, R.526 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.376, B:W.377, B:R.526, B: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: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

B
A

DNA polymerase 1

Related Entries With Identical Sequence