SMTL ID : 3bec.1

Crystal structure of E. coli penicillin-binding protein 5 in complex with a peptide-mimetic cephalosporin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: Y.52, Y.136, A.139, L.140, R.174, D.175 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.175 GOL.3: 8 residues within 4Å: Chain A: N.107, L.108, Y.183, N.197, N.199, I.212, K.213, T.214 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Y.183, A:N.197, A:N.197, A:N.199, A:T.214, A:T.214 Water bridges: A:N.199, A:T.214 GOL.4: 6 residues within 4Å: Chain A: D.74, N.80, F.83, V.116, Q.126, H.151 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.74, A:Q.126, A:H.151 GOL.5: 5 residues within 4Å: Chain A: Y.25, N.26, Q.170, R.174, Y.297 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.170, A:Y.297, A:Y.297

1 x HJ2: (2R)-2-[(R)-{[(6S)-6-amino-6-carboxyhexanoyl]amino}(carboxy)methyl]-5-methyl-3,6-dihydro-2H-1,3-thiazine-4-carboxylic acid(Covalent)

HJ2.2: 8 residues within 4Å: Chain A: A.43, S.44, S.87, R.198, T.214, G.215, H.216, R.248 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.44, A:T.214, A:H.216 Water bridges: A:S.110 Salt bridges: A:R.248

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sauvage, E. et al., Crystal structures of complexes of bacterial DD-peptidases with peptidoglycan-mimetic ligands: the substrate specificity puzzle. J.Mol.Biol. (2008)

Release Date

2008-08-26

Peptides

Penicillin-binding protein 5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Penicillin-binding protein 5

Related Entries With Identical Sequence