SMTL ID : 8r7m.1

CTX-M14 in complex with boric acid and 1,2-diol boric ester

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.00 Å

Oligo State

monomer

Ligands

1 x BO3: BORIC ACID(Covalent)

BO3.1: 10 residues within 4Å: Chain A: C.44, S.45, K.48, S.105, N.107, N.145, K.209, G.211, S.212 Ligands: YCH.3 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:S.45, A:K.48, A:S.105, A:N.107, A:N.145, A:N.145, A:S.212, A:S.212

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: I.148, Y.215, Q.243 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.215, A:Q.243, A:Q.243 GOL.4: 4 residues within 4Å: Chain A: A.4, Q.7, K.8, A.11 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.7 Water bridges: A:Q.7 GOL.5: 2 residues within 4Å: Chain A: P.241, Q.242 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.242

1 x YCH: [(4~{S})-2-oxidanyl-1,3,2-dioxaborolan-4-yl]methanol(Covalent)

YCH.3: 12 residues within 4Å: Chain A: C.44, S.45, K.48, N.79, Y.80, S.105, N.107, N.145, K.209, G.211, S.212 Ligands: BO3.1 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:S.45, A:K.48, A:N.79, A:S.105, A:N.107, A:N.145, A:S.212, A:S.212

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

SO4.6: 2 residues within 4Å: Chain A: K.8, E.261 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.8, A:K.8 Salt bridges: A:K.8 SO4.7: 0 residues within 4Å: (No contacts) 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.187, A:K.187, A:K.187

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

NA.8: 4 residues within 4Å: Chain A: I.83, A.99, A.100, Y.104 1 PLIP interactions: 1 interactions with chain A Water bridges: A:A.100

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Prester, A. et al., Time-resolved crystallography of boric acid binding to the active site serine of the beta-lactamase CTX-M-14 and subsequent 1,2-diol esterification. Commun Chem (2024)

Release Date

2024-01-17

Peptides

Beta-lactamase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-lactamase

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