SMTL ID : 4rbs.1 (1 other biounit)

Crystal Structure of New Delhi Metallo-beta-Lactamase-1 in the Complex with Hydrolyzed Meropenem

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.41 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.93, H.95, H.162, C.181 Ligands: ZN.2, 0RV.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.93, A:H.95, A:H.162 ZN.2: 5 residues within 4Å: Chain A: D.97, C.181, H.223 Ligands: ZN.1, 0RV.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.97, A:C.181, A:H.223

1 x 0RV: (2S)-2-[(1S,2R)-1-carboxy-2-hydroxypropyl]-4-{[(3S,5S)-5-(dimethylcarbamoyl)pyrrolidin-3-yl]sulfanyl}-3-methyl-2H-pyrro le-5-carboxylic acid(Non-covalent)

0RV.3: 13 residues within 4Å: Chain A: W.66, H.93, H.95, Q.96, D.97, H.162, C.181, K.184, G.192, N.193, H.223 Ligands: ZN.1, ZN.2 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:W.66 Hydrogen bonds: A:Q.96, A:D.97, A:N.193, A:N.193 Salt bridges: A:H.95, A:H.162, A:H.162, A:K.184, A:H.223

1 x ACY: ACETIC ACID(Non-functional Binders)

ACY.4: 3 residues within 4Å: Chain A: P.85, V.86, A.108 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.86 Water bridges: A:L.84

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 6 residues within 4Å: Chain A: N.139, W.141, F.156, A.208, A.211, A.212 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.208 Water bridges: A:N.139 GOL.6: 4 residues within 4Å: Chain A: G.210, R.229, I.232, T.233 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.210, A:R.229

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., Crystal Structure of New Delhi Metallo-beta-Lactamase-1 in the Complex with Hydrolyzed Meropenem. To be Published

Release Date

2014-11-26

Peptides

Beta-lactamase NDM-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-lactamase NDM-1

Related Entries With Identical Sequence