SMTL ID : 4cjn.1

Crystal structure of PBP2a from MRSA in complex with quinazolinone ligand

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

4 x CD: CADMIUM ION(Non-covalent)

CD.1: 5 residues within 4Å: Chain A: H.117, E.119 Chain B: E.119 Ligands: CL.3, CD.7 5 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:E.119, B:E.119, A:H.117, A:E.119, H2O.1 CD.2: 4 residues within 4Å: Chain A: G.109, H.285 Chain B: D.183 Ligands: CL.4 5 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:G.109, A:H.285, B:D.183, B:D.183, H2O.1 CD.6: 4 residues within 4Å: Chain A: D.183 Chain B: G.109, H.285 Ligands: CL.9 5 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:G.109, B:H.285, A:D.183, A:D.183, H2O.2 CD.7: 5 residues within 4Å: Chain A: E.119 Chain B: H.117, E.119 Ligands: CD.1, CL.8 5 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:H.117, B:E.119, A:E.119, A:E.119, H2O.1

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 5 residues within 4Å: Chain A: E.119, T.274, V.276 Chain B: E.119 Ligands: CD.1 Ligand excluded by PLIP CL.4: 7 residues within 4Å: Chain A: G.109, Q.111, Q.114, A.284, H.285 Chain B: Q.181 Ligands: CD.2 Ligand excluded by PLIP CL.8: 6 residues within 4Å: Chain A: E.119 Chain B: E.119, T.274, V.276, I.283 Ligands: CD.7 Ligand excluded by PLIP CL.9: 6 residues within 4Å: Chain A: Q.181 Chain B: Q.111, Q.114, A.284, H.285 Ligands: CD.6 Ligand excluded by PLIP

2 x MUR: beta-muramic acid(Non-covalent)

MUR.5: 12 residues within 4Å: Chain A: K.122, E.124, R.125, N.138, T.139, E.213, S.214, R.215, V.230, V.251, I.252, H.267 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:R.215, A:V.230, A:V.251 Hydrogen bonds: A:K.122, A:K.122, A:R.125, A:E.213, A:R.215 Water bridges: A:R.125, A:G.126, A:V.251 Salt bridges: A:R.125, A:H.267 MUR.11: 11 residues within 4Å: Chain B: K.122, S.123, E.124, R.125, N.138, T.139, S.214, R.215, V.230, V.251, H.267 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:V.230, B:V.251 Hydrogen bonds: B:K.122, B:R.125, B:N.138, B:R.215, B:R.215 Water bridges: B:E.124 Salt bridges: B:R.125, B:H.267

1 x QNZ: (E)-3-(2-(4-cyanostyryl)-4-oxoquinazolin-3(4H)-yl)benzoic acid(Non-covalent)

QNZ.10: 10 residues within 4Å: Chain A: I.283 Chain B: N.78, Y.79, N.120, K.247, E.268, D.269, G.270, Y.271, K.290 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:N.78, B:N.120 Hydrogen bonds: B:D.269 Water bridges: B:N.120 Salt bridges: B:K.247, B:K.290 pi-Stacking: B:Y.271

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bouley, R. et al., Discovery of Antibiotic (E)-3-(3-Carboxyphenyl)-2-(4-Cyanostyryl)Quinazolin-4(3H)-One. J.Am.Chem.Soc. (2015)

Release Date

2015-02-11

Peptides

PENICILLIN BINDING PROTEIN 2 PRIME: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PENICILLIN BINDING PROTEIN 2 PRIME

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