SMTL ID : 5f1f.1

Crystal structure of CMY-10 adenylylated by acetyl-AMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

6 x CD: CADMIUM ION(Non-covalent)

CD.1: 1 residues within 4Å: Chain A: H.168 5 PLIP interactions: 5 Ligand-Water interactions Metal complexes: H2O.2, H2O.9, H2O.9, H2O.10, H2O.10 CD.2: 2 residues within 4Å: Chain A: V.285, H.358 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:V.285, A:H.358, H2O.10, H2O.10 CD.3: 1 residues within 4Å: Chain A: H.31 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.31, H2O.11 CD.4: 1 residues within 4Å: Chain A: H.266 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.266, H2O.10, H2O.11 CD.5: 2 residues within 4Å: Chain A: D.21, Q.25 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.21, H2O.1, H2O.9, H2O.10 CD.6: 1 residues within 4Å: Chain A: H.7 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.7, H2O.3

1 x AMP: ADENOSINE MONOPHOSPHATE(Covalent)

AMP.7: 11 residues within 4Å: Chain A: G.71, S.72, Q.128, F.129, Y.158, N.160, Y.230, G.321, S.322, T.323, N.324 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:S.72, A:Q.128, A:F.129, A:Y.158, A:N.160, A:S.322, A:N.324 Water bridges: A:F.129, A:N.324 Salt bridges: A:K.75, A:K.319

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, M.K. et al., Structural and mechanistic insights into the inhibition of class C beta-lactamases through the adenylylation of the nucleophilic serine. J.Antimicrob.Chemother. (2017)

Release Date

2016-12-07

Peptides

Beta-lactamase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-lactamase

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