SMTL ID : 2vwk.1

Uracil Recognition in Archaeal DNA Polymerases Captured by X-ray Crystallography. V93Q polymerase variant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

1 x NA: SODIUM ION(Non-functional Binders)

NA.1: 3 residues within 4Å: Chain A: R.460, K.487 Ligands: SO4.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.460, A:R.460, A:K.487

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

SO4.2: 2 residues within 4Å: Chain A: R.606, G.607 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.607 Water bridges: A:L.608 Salt bridges: A:R.606 SO4.3: 5 residues within 4Å: Chain A: F.405, S.407, K.487, N.491 Ligands: NA.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.407, A:S.407, A:R.460, A:N.491 Salt bridges: A:K.487 SO4.4: 4 residues within 4Å: Chain A: Y.7, P.90, P.115, F.116 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.7, A:F.116 Water bridges: A:A.117 SO4.5: 3 residues within 4Å: Chain A: E.628, K.632, H.633 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.633 SO4.6: 3 residues within 4Å: Chain A: S.348, N.351, Y.499 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.348, A:S.348, A:Y.499 Water bridges: A:S.348, A:S.348 SO4.7: 3 residues within 4Å: Chain A: A.385, G.386, Q.436 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.386, A:Q.436 Salt bridges: A:R.518 SO4.8: 5 residues within 4Å: Chain A: G.387, Y.388, T.541, K.591, K.592 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.388 Salt bridges: A:K.591, A:K.592

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Firbank, S.J. et al., Uracil Recognition in Archaeal DNA Polymerases Captured by X-Ray Crystallography. J.Mol.Biol. (2008)

Release Date

2008-07-22

Peptides

DNA POLYMERASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA POLYMERASE