SMTL ID : 4h3x.1 (1 other biounit)

Crystal structure of an MMP broad spectrum hydroxamate based inhibitor CC27 in complex with the MMP-9 catalytic domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.76 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.121, H.125, H.131 Ligands: 10B.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.121, A:H.125, A:H.131 ZN.2: 4 residues within 4Å: Chain A: H.70, D.72, H.85, H.98 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.70, A:D.72, A:H.85, A:H.98

3 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: D.77, G.78, D.80, L.82, D.100, E.103 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:D.77, A:G.78, A:D.80, A:L.82, A:D.100, A:E.103 CA.4: 3 residues within 4Å: Chain A: D.26, D.101, E.103 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.26, A:D.101, A:E.103, H2O.2, H2O.3 CA.5: 4 residues within 4Å: Chain A: D.60, G.92, Q.94, D.96 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.60, A:G.92, A:Q.94, A:D.96, H2O.1, H2O.1

1 x 10B: N-2-(biphenyl-4-ylsulfonyl)-N-2-(isopropyloxy)-acetohydroxamic acid(Non-covalent)

10B.6: 16 residues within 4Å: Chain A: G.81, L.82, L.83, A.84, L.117, V.118, H.121, E.122, H.125, H.131, L.138, Y.140, P.141, M.142, Y.143 Ligands: ZN.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:H.121, A:L.138, A:Y.143 Hydrogen bonds: A:L.83, A:A.84, A:A.84 pi-Stacking: A:H.121

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 4 residues within 4Å: Chain A: F.116, E.147, P.149, P.150 No protein-ligand interaction detected (PLIP) GOL.8: 4 residues within 4Å: Chain A: D.72, G.73, Y.74 Ligands: GOL.11 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Y.74 GOL.9: 3 residues within 4Å: Chain A: Y.74, L.82, H.85 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Y.74 GOL.11: 1 residues within 4Å: Ligands: GOL.8 No protein-ligand interaction detected (PLIP) GOL.12: 3 residues within 4Å: Chain A: N.15, T.17, T.52 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.15 Water bridges: A:T.52, A:T.52, A:T.52 GOL.13: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

1 x PGO: S-1,2-PROPANEDIOL(Non-covalent)

PGO.10: 3 residues within 4Å: Chain A: V.67, A.68, E.69 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.69

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Antoni, C. et al., Crystallization of bi-functional ligand protein complexes. J.Struct.Biol. (2013)

Release Date

2013-04-24

Peptides

Matrix metalloproteinase-9: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Matrix metalloproteinase-9

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