SMTL ID : 4q6m.1

Structural analysis of the apo-form of Helicobacter pylori Csd4, a D,L-carboxypeptidase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

3 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain A: Q.45, E.48, H.127 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.48, A:H.127, H2O.2, H2O.6, H2O.8 CA.2: 4 residues within 4Å: Chain A: N.381, V.382, F.385, E.395 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:V.382, A:F.385, A:E.395, H2O.4, H2O.5 CA.3: 2 residues within 4Å: Chain A: H.61, D.253 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.61, A:D.253, A:D.253, H2O.8

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: N.92, H.127, W.147, A.205, E.221 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.221, A:E.221 Water bridges: A:N.92, A:N.92, A:N.92

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, H.S. et al., Structural basis for the recognition of muramyltripeptide by Helicobacter pylori Csd4, a D,L-carboxypeptidase controlling the helical cell shape. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-11-05

Peptides

Conserved hypothetical secreted protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Conserved hypothetical secreted protein

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