SMTL ID : 3itc.1

Crystal structure of Sco3058 with bound citrate and glycerol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 7 residues within 4Å: Chain A: H.20, D.22, S.66, E.123, D.320 Ligands: ZN.2, GOL.4 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.20, A:D.22, A:E.123, A:E.123, H2O.1 ZN.2: 8 residues within 4Å: Chain A: H.20, E.123, H.191, H.212, R.223 Ligands: ZN.1, CIT.3, GOL.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.123, A:H.191, A:H.212, H2O.1

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.3: 14 residues within 4Å: Chain A: H.150, N.151, H.191, H.212, R.223, V.245, K.247, F.248, D.320, G.323, T.324, P.325 Ligands: ZN.2, GOL.4 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:V.245, A:F.248 Hydrogen bonds: A:N.151, A:G.323 Water bridges: A:H.191, A:R.223, A:K.247, A:K.247 Salt bridges: A:H.150, A:H.191, A:H.191, A:H.212, A:R.223

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 8 residues within 4Å: Chain A: D.22, Y.68, E.123, H.150, G.323 Ligands: ZN.1, ZN.2, CIT.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.22

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

2010-02-02

Peptides

renal dipeptidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

renal dipeptidase

Related Entries With Identical Sequence