SMTL ID : 3ba8.1

Structural Basis for the Inhibition of Bacterial NAD+ Dependent DNA Ligase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: L.124, A.125, R.141, R.202 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.125, A:R.202 Water bridges: A:R.141, A:G.142 Salt bridges: A:R.141 SO4.2: 3 residues within 4Å: Chain A: P.81, R.129, R.137 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.129, A:R.137 SO4.3: 4 residues within 4Å: Chain A: R.190, Q.195, Q.211, R.220 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.195, A:Q.211 Water bridges: A:R.220, A:R.220, A:R.220 Salt bridges: A:R.190, A:R.220

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

NMN.4: 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 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.29, A:Y.30 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 Salt bridges: A:R.158 pi-Stacking: A:Y.29, A:Y.42

1 x 3B8: 2-amino-7-fluoro-5-oxo-5H-chromeno[2,3-b]pyridine-3-carboxamide(Non-covalent)

3B8.5: 14 residues within 4Å: Chain A: Y.87, S.88, L.89, E.118, L.119, K.120, I.121, R.141, E.175, Y.227, V.289, K.291, P.308, W.310 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.89, A:L.89, A:L.89, A:V.289, A:W.310 Hydrogen bonds: A:E.118, A:I.121, A:I.121, A:R.141, A:K.291 Water bridges: A:K.120, A:K.120, A:R.141 pi-Stacking: A:Y.227

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pinko, C. et al., Structural Basis for the Inhibition of Bacterial NAD+ Dependent DNA Ligase. To be Published

Release Date

2008-11-11

Peptides

DNA ligase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA ligase

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