SMTL ID : 1zp5.1

Crystal structure of the complex between MMP-8 and a N-hydroxyurea inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.58, G.90, I.91, G.92, D.94 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.58, A:G.90, A:G.92, A:D.94, H2O.4 CA.2: 6 residues within 4Å: Chain A: D.75, G.76, N.78, I.80, D.98, E.101 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:D.75, A:G.76, A:N.78, A:I.80, A:D.98, A:E.101

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: H.68, D.70, H.83, H.96 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.68, A:D.70, A:H.83, A:H.96 ZN.4: 4 residues within 4Å: Chain A: H.118, H.122, H.128 Ligands: 2NI.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.118, A:H.122, A:H.128

1 x 2NI: N-{2-[(4'-CYANO-1,1'-BIPHENYL-4-YL)OXY]ETHYL}-N'-HYDROXY-N-METHYLUREA(Non-covalent)

2NI.5: 16 residues within 4Å: Chain A: I.80, L.81, A.82, L.114, V.115, H.118, E.119, H.122, H.128, L.135, Y.137, P.138, N.139, Y.140, A.141 Ligands: ZN.4 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.81, A:V.115, A:H.118, A:Y.140, A:Y.140 Hydrogen bonds: A:L.81, A:A.82, A:E.119 pi-Stacking: A:H.118

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Campestre, C. et al., N-Hydroxyurea as zinc binding group in matrix metalloproteinase inhibition: Mode of binding in a complex with MMP-8. Bioorg.Med.Chem.Lett. (2006)

Release Date

2005-12-06

Peptides

Neutrophil collagenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Neutrophil collagenase

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