SMTL ID : 3k5x.1 (1 other biounit)

Crystal structure of dipeptidase from Streptomics coelicolor complexed with phosphinate pseudodipeptide L-Ala-D-Asp at 1.4A resolution.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

1 x P8D: phosphinate pseudodipeptide L-Ala-D-Asp(Non-covalent)

P8D.1: 16 residues within 4Å: Chain A: H.20, D.22, Y.68, E.123, H.150, H.191, H.212, R.223, K.247, F.248, D.320, G.323, T.324, P.325 Ligands: ZN.2, ZN.3 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:Y.68 Hydrogen bonds: A:D.22, A:T.324 Water bridges: A:N.151, A:N.151, A:N.151, A:R.223, A:K.247, A:K.247, A:K.247 Salt bridges: A:H.191, A:H.212, A:R.223, A:K.247

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 7 residues within 4Å: Chain A: H.20, D.22, S.66, E.123, D.320 Ligands: P8D.1, ZN.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.20, A:D.22, A:D.22, A:E.123 ZN.3: 6 residues within 4Å: Chain A: E.123, H.191, H.212, R.223 Ligands: P8D.1, ZN.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.123, A:H.191, A:H.212

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cummings, J.A. et al., Structure, mechanism, and substrate profile for Sco3058: the closest bacterial homologue to human renal dipeptidase . Biochemistry (2010)

Release Date

2010-01-12

Peptides

Dipeptidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dipeptidase

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