SMTL ID : 1ta8.1

Structural rearrangement accompanying NAD+ synthesis within a bacterial DNA ligase crystal

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: G.123, L.124, A.125, R.141, R.202 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:A.125 Water bridges: A:R.141, A:R.141, A:G.142, A:G.142, A:R.202, A:R.202 Salt bridges: A:R.141, A:R.202 SO4.2: 3 residues within 4Å: Chain A: P.81, R.129, R.137 5 PLIP interactions: 5 interactions with chain A Water bridges: A:R.129, A:R.129, A:R.129 Salt bridges: A:R.129, A:R.137

1 x NMN: BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE(Non-covalent)

NMN.3: 12 residues within 4Å: Chain A: Y.25, S.26, Y.29, Y.30, P.35, V.37, E.38, D.39, Y.42, D.43, Y.46, R.158 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Y.29, A:Y.30, A:Y.42 Hydrogen bonds: A:Y.30, A:D.39, A:D.39, A:Y.42, A:D.43 Water bridges: A:V.37, A:Y.42, A:Y.46, A:P.65 Salt bridges: A:R.158 pi-Stacking: A:Y.29, A:Y.42

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: Y.87, Y.227, F.303, P.308, W.310 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gajiwala, K.S. et al., Structural rearrangement accompanying NAD+ synthesis within a bacterial DNA ligase crystal. STRUCTURE (2004)

Release Date

2004-11-23

Peptides

DNA ligase, NAD-dependent: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA ligase, NAD-dependent