SMTL ID : 6k4x.1

Crystal structure of SMB-1 metallo-beta-lactamase in a complex with ASB

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.17 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.72, H.74, H.150 Ligands: ZN.2, D0U.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.72, A:H.74, A:H.150 ZN.2: 5 residues within 4Å: Chain A: D.76, H.77, H.215 Ligands: ZN.1, D0U.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.76, A:H.77, A:H.215

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.3: 3 residues within 4Å: Chain A: E.217, V.218, D.220 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.218, A:D.220 Water bridges: A:D.220, A:A.244

1 x D0U: 4-azanyl-2-sulfanyl-benzoic acid(Non-covalent)

D0U.4: 12 residues within 4Å: Chain A: H.72, H.74, D.76, H.77, Q.113, H.150, S.175, T.177, V.179, H.215 Ligands: ZN.1, ZN.2 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.179 Hydrogen bonds: A:Q.113, A:S.175 Salt bridges: A:H.72, A:H.77, A:H.150, A:H.215

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

SO4.5: 3 residues within 4Å: Chain A: A.124, K.125, R.127 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.125 Water bridges: A:V.126, A:V.126 Salt bridges: A:R.127 SO4.6: 2 residues within 4Å: Chain A: T.177, R.252 5 PLIP interactions: 5 interactions with chain A Water bridges: A:A.248, A:R.252, A:R.252, A:R.252 Salt bridges: A:R.252 SO4.7: 1 residues within 4Å: Chain A: R.243 2 PLIP interactions: 2 interactions with chain A Water bridges: A:A.244 Salt bridges: A:R.243

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wachino, J. et al., 4-Amino-2-Sulfanylbenzoic Acid as a Potent Subclass B3 Metallo-beta-Lactamase-Specific Inhibitor Applicable for Distinguishing Metallo-beta-Lactamase Subclasses. Antimicrob.Agents Chemother. (2019)

Release Date

2019-08-07

Peptides

Metallo-beta-lactamase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Metallo-beta-lactamase

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