SMTL ID : 3gip.2 (1 other biounit)

Crystal structure of N-acyl-D-Glutamate Deacylase from Bordetella Bronchiseptica complexed with zinc, acetate and formate ions.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

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

ACY.1: 12 residues within 4Å: Chain A: H.66, H.68, C.95, L.114, Y.190, H.218, H.248, S.288, T.289, D.365 Ligands: FMT.2, ZN.4 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.114 Hydrogen bonds: A:Y.190 Salt bridges: A:H.66, A:H.68, A:H.218, A:H.248

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.2: 8 residues within 4Å: Chain A: H.248, K.250, Y.282, S.287, S.288, D.365, R.376 Ligands: ACY.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.248, A:Y.282, A:S.288, A:D.365, A:R.376, A:R.376 FMT.3: 5 residues within 4Å: Chain A: M.252, S.287, T.289, R.295, Y.343 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.287, A:R.295, A:R.295 Water bridges: A:H.218, A:E.222

1 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain A: C.95, H.218, H.248 Ligands: ACY.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:C.95, A:H.218, A:H.248, ACY.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cummings, J.A. et al., Annotating enzymes of uncertain function: the deacylation of D-amino acids by members of the amidohydrolase superfamily. Biochemistry (2009)

Release Date

2009-09-01

Peptides

N-acyl-D-glutamate deacylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

N-acyl-D-glutamate deacylase

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