SMTL ID : 4h0d.1 (1 other biounit)

New Delhi Metallo-beta-Lactamase-1 Complexed with Mn from Klebsiella pneumoniae

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x ZZ7: (2R,4S)-2-[(R)-{[(2R)-2-amino-2-phenylacetyl]amino}(carboxy)methyl]-5,5-dimethyl-1,3-thiazolidine-4-carboxylic acid(Non-covalent)

ZZ7.1: 14 residues within 4Å: Chain A: L.38, M.40, W.66, H.95, Q.96, D.97, H.162, C.181, K.184, G.192, N.193, H.223 Ligands: MN.2, MN.3 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.38, A:W.66, A:N.193 Hydrogen bonds: A:Q.96, 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

3 x MN: MANGANESE (II) ION(Non-covalent)

MN.2: 4 residues within 4Å: Chain A: H.93, H.95, H.162 Ligands: ZZ7.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.93, A:H.95, A:H.162, H2O.1 MN.3: 4 residues within 4Å: Chain A: D.97, C.181, H.223 Ligands: ZZ7.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.97, A:C.181, A:H.223, H2O.1 MN.6: 2 residues within 4Å: Chain A: E.200, H.201 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.200, A:H.201, H2O.8

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

EDO.4: 3 residues within 4Å: Chain A: P.226, D.227, S.228 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.226

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 2 residues within 4Å: Chain A: D.68, D.103 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.68, A:D.68 Water bridges: A:D.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., New Delhi Metallo-beta-Lactamase-1 Complexed with Mn from Klebsiella pneumoniae. To be Published

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

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