SMTL ID : 8f3t.1

Crystal structure of Penicillin Binding Protein 5 (PBP5) T485M T499I V629E variant apo form from Enterococcus faecium

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.56 Å

Oligo State

monomer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: G.460, E.461, K.462 Ligand excluded by PLIP SO4.2: 3 residues within 4Å: Chain A: S.268, G.269, M.272 Ligand excluded by PLIP SO4.3: 4 residues within 4Å: Chain A: V.557, P.558, R.561, P.609 Ligand excluded by PLIP SO4.4: 3 residues within 4Å: Chain A: N.256, K.276, R.279 Ligand excluded by PLIP SO4.5: 4 residues within 4Å: Chain A: N.414, G.415, L.416, K.417 Ligand excluded by PLIP SO4.6: 1 residues within 4Å: Chain A: W.418 Ligand excluded by PLIP SO4.7: 3 residues within 4Å: Chain A: G.549, E.550, T.551 Ligand excluded by PLIP SO4.8: 4 residues within 4Å: Chain A: Q.193, S.362, Q.363, E.364 Ligand excluded by PLIP SO4.9: 3 residues within 4Å: Chain A: R.146, N.147, Y.644 Ligand excluded by PLIP SO4.10: 3 residues within 4Å: Chain A: V.435, S.436, Q.437 Ligand excluded by PLIP SO4.11: 3 residues within 4Å: Chain A: D.543, K.544, K.545 Ligand excluded by PLIP SO4.12: 3 residues within 4Å: Chain A: K.539, E.540, K.542 Ligand excluded by PLIP SO4.13: 1 residues within 4Å: Chain A: N.306 Ligand excluded by PLIP SO4.14: 3 residues within 4Å: Chain A: D.610, N.611, Q.645 Ligand excluded by PLIP SO4.15: 2 residues within 4Å: Chain A: S.46, E.47 Ligand excluded by PLIP SO4.16: 2 residues within 4Å: Chain A: E.491, D.492 Ligand excluded by PLIP SO4.17: 2 residues within 4Å: Chain A: D.421, S.422 Ligand excluded by PLIP SO4.18: 4 residues within 4Å: Chain A: Y.244, S.268, Y.366, F.377 Ligand excluded by PLIP SO4.19: 2 residues within 4Å: Chain A: S.69, N.70 Ligand excluded by PLIP

3 x NA: SODIUM ION(Non-functional Binders)

NA.20: 2 residues within 4Å: Chain A: L.499, E.509 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.509 Water bridges: A:N.490, A:E.491 NA.21: 1 residues within 4Å: Chain A: N.484 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.484 Water bridges: A:N.484, A:N.484, A:N.484, A:N.484, A:P.485 NA.22: 4 residues within 4Å: Chain A: S.389, S.447, T.585, G.586 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.389, A:S.389, A:S.447, A:T.585

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hunashal, Y. et al., The Molecular Basis for Resistance of E. faecium PBP5 to beta-lactam Antibiotics. Nat Commun (2023)

Release Date

2023-07-05

Peptides

Penicillin binding protein 5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Penicillin binding protein 5

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