SMTL ID : 3mze.1

Structure of penicillin-binding protein 5 from E.coli: cefoxitin acyl-enzyme complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x 1QL: (2R)-5-[(carbamoyloxy)methyl]-2-{(1S)-1-methoxy-2-oxo-1-[(thiophen-2-ylacetyl)amino]ethyl}-3,6-dihydro-2H-1,3-thiazine-4-carboxylic acid(Covalent)

1QL.1: 17 residues within 4Å: Chain A: A.43, S.44, K.47, K.84, G.85, S.86, S.87, N.112, H.151, L.153, R.198, T.214, G.215, H.216, T.217, F.245, R.248 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.245 Hydrogen bonds: A:S.44, A:K.47, A:N.112, A:H.216 Salt bridges: A:R.248

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: N.134, V.137, N.138, T.145, H.146 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.134, A:N.138, A:N.138 Water bridges: A:Y.159 GOL.3: 6 residues within 4Å: Chain A: E.65, S.100, I.103, R.104, N.178, I.182 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.65, A:R.104, A:R.104, A:N.178 GOL.4: 4 residues within 4Å: Chain A: D.37, K.143, N.144, R.163 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.37, A:K.143, A:N.144 Water bridges: A:D.37, A:D.164, A:D.164, A:D.164 GOL.5: 5 residues within 4Å: Chain A: Y.25, N.26, Q.170, R.174, K.294 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.25, A:R.174, A:K.294 Water bridges: A:N.26

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nicola, G. et al., Crystal structures of covalent complexes of beta-lactam antibiotics with Escherichia coli penicillin-binding protein 5: toward an understanding of antibiotic specificity. Biochemistry (2010)

Release Date

2011-03-16

Peptides

D-alanyl-D-alanine carboxypeptidase dacA: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D-alanyl-D-alanine carboxypeptidase dacA

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