SMTL ID : 4o23.1

Crystal structure of mono-zinc form of succinyl diaminopimelate desuccinylase from Neisseria meningitidis MC58

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

homo-dimer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.71, D.104, E.138, E.139, E.167 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.71, A:D.104, A:E.167, A:E.167, H2O.5 ZN.2: 6 residues within 4Å: Chain B: H.71, D.104, E.138, E.139, E.167 Ligands: ZN.3 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.71, B:D.104, B:E.167, B:E.167, H2O.11 ZN.3: 4 residues within 4Å: Chain B: D.104, E.139, H.353 Ligands: ZN.2 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.104, B:E.139, B:E.139, B:H.353, H2O.11

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 5 residues within 4Å: Chain A: H.198, N.249 Chain B: R.262, G.328, T.329 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:N.249, B:T.329 Salt bridges: A:H.198, B:R.262 SO4.5: 3 residues within 4Å: Chain A: R.262 Chain B: H.198, N.249 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Water bridges: A:S.185, A:S.294 Salt bridges: A:R.262, B:H.198 Hydrogen bonds: B:N.249

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Starus, A. et al., Inhibition of the dapE-Encoded N-Succinyl-L,L-diaminopimelic Acid Desuccinylase from Neisseria meningitidis by L-Captopril. Biochemistry (2015)

Release Date

2014-01-15

Peptides

Succinyl-diaminopimelate desuccinylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Succinyl-diaminopimelate desuccinylase

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