SMTL ID : 7uoi.1

Crystallographic structure of DapE from Enterococcus faecium

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.94, D.127, E.161, E.162, E.187 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.94, A:D.127, A:E.187, A:E.187, H2O.11 ZN.4: 5 residues within 4Å: Chain B: H.94, D.127, E.161, E.162, E.187 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.94, B:D.127, B:E.187, B:E.187, H2O.30

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: L.259, S.261, Q.274, Q.276 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.261, A:Q.274, A:Q.276 GOL.3: 3 residues within 4Å: Chain A: Q.81, K.82, G.83 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.83 Water bridges: A:G.83 GOL.5: 4 residues within 4Å: Chain B: L.259, S.261, Q.274, Q.276 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.261, B:Q.274, B:Q.276 GOL.6: 3 residues within 4Å: Chain B: Q.81, K.82, G.83 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.83 Water bridges: B:G.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Terrazas-Lopez, M. et al., Structural basis of Enterococcus faecium DapE enzyme interaction with potential bioactive molecules. To Be Published

Release Date

2023-04-12

Peptides

succinyl-diaminopimelate desuccinylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

succinyl-diaminopimelate desuccinylase