SMTL ID : 6v7h.2 (1 other biounit)

Structure of CTX-M-14 bound to Vaborbactam at 1.0 A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.00 Å

Oligo State

monomer

Ligands

1 x 4D6: Vaborbactam(Covalent)

4D6.1: 17 residues within 4Å: Chain A: C.44, S.45, K.48, N.79, Y.80, S.105, N.107, P.142, N.145, T.191, K.209, T.210, G.211, S.212, G.213, D.214 Ligands: WXM.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:N.145 Hydrogen bonds: A:S.45, A:N.79, A:N.107, A:S.212, A:S.212, A:S.212, A:S.212, A:S.212 Water bridges: A:N.145 Salt bridges: A:K.209

1 x WXM: 2-[(3~{R},6~{S})-2,2-bis(oxidanyl)-3-(2-thiophen-2-ylethanoylamino)-1-oxa-2-boranuidacyclohex-6-yl]ethanoic acid(Non-covalent)

WXM.2: 4 residues within 4Å: Chain A: N.79, Y.80, S.212 Ligands: 4D6.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.80 Hydrogen bonds: A:N.79, A:N.79 Water bridges: A:N.79, A:N.79 pi-Stacking: A:Y.80

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 3 residues within 4Å: Chain A: K.63, T.177, Q.178 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:T.177, A:Q.178 Water bridges: A:K.63, A:K.63, A:K.63, A:K.63, A:T.177, A:T.177, A:T.177 Salt bridges: A:K.63 PO4.4: 2 residues within 4Å: Chain A: H.172, R.179 7 PLIP interactions: 7 interactions with chain A Water bridges: A:H.172, A:R.179, A:R.179, A:R.179, A:R.179 Salt bridges: A:H.172, A:R.179

1 x K: POTASSIUM ION(Non-functional Binders)

K.5: 1 residues within 4Å: Chain A: G.118 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pemberton, O.A. et al., Structural Basis and Binding Kinetics of Vaborbactam in Class A beta-Lactamase Inhibition. Antimicrob.Agents Chemother. (2020)

Release Date

2020-08-12

Peptides

Beta-lactamase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Beta-lactamase

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