SMTL ID : 1s5j.1

Insight in DNA Replication: The crystal structure of DNA Polymerase B1 from the archaeon Sulfolobus solfataricus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: P.103, R.107, K.122, Y.123 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.123 Salt bridges: A:R.107 SO4.2: 3 residues within 4Å: Chain A: R.539, K.544, K.568 6 PLIP interactions: 6 interactions with chain A Water bridges: A:A.481, A:R.539, A:R.539, A:K.544 Salt bridges: A:R.539, A:K.544 SO4.3: 5 residues within 4Å: Chain A: I.15, F.17, K.37, P.138, E.186 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.186 Water bridges: A:E.186 Salt bridges: A:K.37 SO4.4: 4 residues within 4Å: Chain A: A.481, S.482, K.568, N.572 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.572 Water bridges: A:K.568, A:K.568 Salt bridges: A:K.568 SO4.5: 2 residues within 4Å: Chain A: K.52, R.101 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.52, A:R.101 SO4.6: 2 residues within 4Å: Chain A: R.107, R.110 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.110 Salt bridges: A:R.107, A:K.122 SO4.7: 6 residues within 4Å: Chain A: W.6, L.7, E.8, K.41, I.42, A.315 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.6, A:E.8, A:E.8 Water bridges: A:I.42 Salt bridges: A:K.41 SO4.8: 5 residues within 4Å: Chain A: E.241, F.254, N.255, T.256, E.259 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.255, A:N.255, A:T.256 SO4.9: 6 residues within 4Å: Chain A: D.86, F.93, Y.117, L.434, E.440, K.444 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.444

1 x MG: MAGNESIUM ION(Non-covalent)

MG.10: 4 residues within 4Å: Chain A: D.196, I.197, E.198, D.378 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.196, A:D.196, A:E.198, A:D.378

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Savino, C. et al., Insights into DNA replication: the crystal structure of DNA polymerase B1 from the archaeon Sulfolobus solfataricus. Structure (2004)

Release Date

2004-11-09

Peptides

DNA polymerase I: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA polymerase I