SMTL ID : 2gkj.1

Crystal structure of diaminopimelate epimerase in complex with an irreversible inhibitor DL-AZIDAP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x ZDR: (2R,6S)-2,6-DIAMINO-2-METHYLHEPTANEDIOIC ACID(Covalent)

ZDR.1: 16 residues within 4Å: Chain A: N.11, Q.44, N.64, V.70, Q.72, C.73, G.74, N.75, N.157, N.190, E.208, R.209, A.216, C.217, G.218, S.219 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:E.208 Hydrogen bonds: A:N.11, A:N.11, A:Q.44, A:N.64, A:N.64, A:G.74, A:N.75, A:N.157, A:N.190, A:E.208, A:G.218, A:S.219 Water bridges: A:T.214 Salt bridges: A:R.209

2 x ACY: ACETIC ACID(Non-functional Binders)

ACY.2: 4 residues within 4Å: Chain A: F.24, F.25, R.61, F.63 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.63 Hydrogen bonds: A:F.25, A:F.25 Water bridges: A:R.61, A:R.61 Salt bridges: A:R.61 ACY.3: 4 residues within 4Å: Chain A: E.136, Y.139, I.140, R.184 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:E.136 Hydrogen bonds: A:I.140 Water bridges: A:N.133 Salt bridges: A:R.184

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pillai, B. et al., Structural insights into stereochemical inversion by diaminopimelate epimerase: An antibacterial drug target. Proc.Natl.Acad.Sci.Usa (2006)

Release Date

2006-05-16

Peptides

Diaminopimelate epimerase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Diaminopimelate epimerase

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