SMTL ID : 1v51.1

The functional role of the binuclear metal center in D-aminoacylase. One-metal activation and second-metal attenuation

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 12 residues within 4Å: Chain A: H.80, H.82, C.109, Y.205, H.233, H.263, S.302, T.303, D.379 Ligands: ACT.2, ZN.3, ZN.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.205 Salt bridges: A:H.80, A:H.82, A:H.233, A:H.263 ACT.2: 8 residues within 4Å: Chain A: H.263, K.265, Y.296, G.301, S.302, D.379, R.390 Ligands: ACT.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.302, A:S.302 Salt bridges: A:H.263, A:K.265, A:R.390

11 x ZN: ZINC ION(Non-covalent)(Non-functional Binders)

ZN.3: 5 residues within 4Å: Chain A: C.109, H.233, H.263 Ligands: ACT.1, ZN.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:C.109, A:H.233, A:H.263, ACT.1 ZN.4: 7 residues within 4Å: Chain A: H.80, H.82, C.109, H.263, D.379 Ligands: ACT.1, ZN.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.80, A:H.82, A:D.379 ZN.5: 2 residues within 4Å: Chain A: H.401, D.405 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.401 ZN.6: 2 residues within 4Å: Chain A: E.334, E.338 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.334, A:E.338, A:E.338 ZN.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) ZN.8: 1 residues within 4Å: Chain A: A.313 No protein-ligand interaction detected (PLIP) ZN.9: 2 residues within 4Å: Chain A: E.214, E.218 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.214, A:E.214, A:E.218 ZN.10: 1 residues within 4Å: Chain A: D.256 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.256, A:D.256, H2O.189 ZN.11: 2 residues within 4Å: Chain A: D.189, H.226 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.189, A:D.189, A:H.226 ZN.12: 2 residues within 4Å: Chain A: G.484, H.486 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.486 ZN.13: 2 residues within 4Å: Chain A: H.90, E.130 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.90, A:E.130, A:E.130

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lai, W.L. et al., The functional role of the binuclear metal center in D-aminoacylase: one-metal activation and second-metal attenuation. J.Biol.Chem. (2004)

Release Date

2004-04-20

Peptides

D-aminoacylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D-aminoacylase

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