SMTL ID : 4gyu.1

Crystal Structure of New Delhi Metallo-beta-Lactamase-1 A121F mutant from Klebsiella pneumoniae

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

2 x IMD: IMIDAZOLE(Non-covalent)

IMD.1: 9 residues within 4Å: Chain A: V.91, H.93, F.94, S.118, N.119, A.122, V.128, A.129, A.130 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.93, A:A.130 Water bridges: A:H.95 IMD.2: 5 residues within 4Å: Chain A: D.63, T.64, V.91, H.93, K.98 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.64, A:T.64, A:K.98 Water bridges: A:H.95 pi-Stacking: A:H.93

1 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.3: 12 residues within 4Å: Chain A: Q.10, Q.11, E.13, T.14, G.15, Q.17, F.24, R.25, Q.26, W.32, R.54, E.81 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.14, A:Q.26, A:R.54, A:R.54 Water bridges: A:D.16

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 4 residues within 4Å: Chain A: H.106, A.129, A.130, Q.131 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.131

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 8 residues within 4Å: Chain A: G.170, I.171, T.174, D.175, I.176, F.213, K.215, A.216 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:I.171, A:I.171, A:I.176, A:K.215 Water bridges: A:T.174, A:K.215 GOL.6: 4 residues within 4Å: Chain A: Q.80, E.81, I.82, N.83 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:I.82

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., Crystal Structure of New Delhi Metallo-beta-Lactamase-1 A121F mutant from Klebsiella pneumoniae. To be Published (2012)

Release Date

2012-09-26

Peptides

Beta-lactamase NDM-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-lactamase NDM-1