SMTL ID : 3gde.1

The closed conformation of ATP-dependent DNA ligase from Archaeoglobus fulgidus

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

4 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 4 residues within 4Å: Chain A: R.272, R.414, K.420 Ligands: PO4.2 10 PLIP interactions: 10 interactions with chain A Water bridges: A:R.273, A:K.420, A:K.420, A:R.544, A:R.544, A:R.544 Salt bridges: A:R.272, A:R.414, A:K.420, A:R.544 PO4.2: 7 residues within 4Å: Chain A: K.252, E.398, K.420, K.422, E.426 Ligands: PO4.1, PO4.3 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:E.426 Water bridges: A:K.252, A:K.252, A:K.252, A:K.420, A:E.426, A:T.427, A:R.544, A:R.544 Salt bridges: A:K.252, A:K.420, A:K.422 PO4.3: 5 residues within 4Å: Chain A: R.273, D.429, R.531, K.534 Ligands: PO4.2 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:R.273 Water bridges: A:G.255, A:R.273, A:T.427, A:E.504, A:R.531, A:R.531, A:K.534, A:K.534 Salt bridges: A:R.531, A:K.534 PO4.4: 3 residues within 4Å: Chain A: Q.314, R.318, R.529 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.318 Water bridges: A:L.530 Salt bridges: A:R.529

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, D.J. et al., ATP-dependent DNA ligase from Archaeoglobus fulgidus displays a tightly closed conformation. Acta Crystallogr.,Sect.F (2009)

Release Date

2009-12-15

Peptides

DNA ligase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA ligase