SMTL ID : 1vgn.1

Structure-based design of the irreversible inhibitors to metallo--lactamase (IMP-1)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.63 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.77, H.79, D.81, H.139 Ligands: ZN.2, OPS.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.77, A:H.79, A:H.139 ZN.2: 5 residues within 4Å: Chain A: D.81, C.158, H.197 Ligands: ZN.1, OPS.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.81, A:C.158, A:H.197 ZN.5: 6 residues within 4Å: Chain B: H.77, H.79, H.139, C.158 Ligands: ZN.6, OPS.7 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.77, B:H.79, B:H.139 ZN.6: 5 residues within 4Å: Chain B: D.81, C.158, H.197 Ligands: ZN.5, OPS.7 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.81, B:C.158, B:H.197

2 x OPS: 3-OXO-3-[(3-OXOPROPYL)SULFANYL]PROPANE-1-THIOLATE(Covalent)

OPS.3: 13 residues within 4Å: Chain A: V.25, W.28, H.77, H.79, D.81, H.139, C.158, K.161, G.166, N.167, H.197 Ligands: ZN.1, ZN.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.167, A:N.167 OPS.7: 12 residues within 4Å: Chain B: V.31, H.77, H.79, D.81, H.139, C.158, K.161, G.166, N.167, H.197 Ligands: ZN.5, ZN.6 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.167, B:N.167

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

ACY.4: 5 residues within 4Å: Chain A: E.24, V.25, G.27, W.28, G.29 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.27, A:W.28, A:G.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kurosaki, H. et al., Irreversible Inhibition of Metallo-beta-lactamase (IMP-1) by 3-(3-Mercaptopropionylsulfanyl)propionic Acid Pentafluorophenyl Ester. Angew.Chem.Int.Ed.Engl. (2005)

Release Date

2005-06-21

Peptides

Beta-lactamase IMP-1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Beta-lactamase IMP-1

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