SMTL ID : 5zjc.1

Crystal structure of NDM-1 in complex with D-captopril derivative CY41

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 0.96 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.92, H.94, H.161 Ligands: ZN.2, 9EX.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.92, A:H.94, A:H.161 ZN.2: 5 residues within 4Å: Chain A: D.96, C.180, H.222 Ligands: ZN.1, 9EX.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.96, A:C.180, A:H.222

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 8 residues within 4Å: Chain A: H.92, A.93, H.94, L.120, E.124, T.162, D.164, D.195 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.93, A:A.93 Water bridges: A:S.163 EDO.4: 4 residues within 4Å: Chain A: G.209, R.228, I.231, T.232 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.228 Water bridges: A:R.228

1 x 9EX: (2S)-2-methyl-3-sulfanyl-propan-1-ol(Non-covalent)

9EX.5: 9 residues within 4Å: Chain A: W.65, H.94, D.96, H.161, C.180, N.192, H.222 Ligands: ZN.1, ZN.2 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:W.65

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, H. et al., Crystal structure of NDM-1. to be published

Release Date

2019-03-20

Peptides

Metallo-beta-lactamase type 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Metallo-beta-lactamase type 2

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