SMTL ID : 6td1.1

Crystal structure of VNRX-5133 (taniborbactam) bound to KPC-2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.20 Å

Oligo State

monomer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: Q.201, V.204, K.208, A.226, W.247 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.201, A:Q.201, A:K.208

1 x KJK: (3~{R})-3-[2-[4-(2-azanylethylamino)cyclohexyl]ethanoylamino]-2-oxidanyl-3,4-dihydro-1,2-benzoxaborinine-8-carboxylic acid(Covalent)

KJK.2: 17 residues within 4Å: Chain A: C.65, S.66, K.69, W.101, S.126, N.128, E.162, L.163, N.166, T.212, R.216, K.230, T.231, G.232, T.233, C.234, G.235 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:W.101, A:W.101 Hydrogen bonds: A:S.66, A:S.66, A:S.126, A:S.126, A:N.128, A:N.166, A:N.166, A:T.231, A:T.233, A:T.233 Salt bridges: A:R.216, A:K.230

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

SO4.3: 3 residues within 4Å: Chain A: S.270, E.271, A.272 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.269, A:E.271, A:A.272 SO4.4: 1 residues within 4Å: Chain A: R.57 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.57 Salt bridges: A:R.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tooke, C.L. et al., Cyclic boronates as versatile scaffolds for KPC-2 beta-lactamase inhibition. Rsc Med Chem (2020)

Release Date

2020-01-22

Peptides

Carbapenem-hydrolyzing beta-lactamase KPC: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Carbapenem-hydrolyzing beta-lactamase KPC

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