SMTL ID : 2ovx.2 (2 other biounits)

MMP-9 active site mutant with barbiturate inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.117, H.121, H.127 Ligands: 4MR.10 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.117, A:H.121, A:H.127 ZN.2: 4 residues within 4Å: Chain A: H.66, D.68, H.81, H.94 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.66, A:D.68, A:H.81, A:H.94

5 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: D.73, G.74, D.76, L.78, D.96, E.99 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:D.73, A:G.74, A:D.76, A:L.78, A:D.96, A:E.99 CA.4: 4 residues within 4Å: Chain A: D.56, G.88, Q.90, D.92 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.56, A:G.88, A:Q.90, A:D.92 CA.5: 5 residues within 4Å: Chain A: S.20, D.22, D.97, E.99, W.101 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.22, A:D.97, A:D.97, A:E.99 CA.6: 6 residues within 4Å: Chain A: S.102, L.103, G.104, K.105, G.106, Q.107 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.102, A:L.103, A:K.105, H2O.2, H2O.3 CA.7: 2 residues within 4Å: Chain A: S.40, T.43 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.40, A:T.43, H2O.2, H2O.3

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.8: 5 residues within 4Å: Chain A: L.103, G.104, S.110, F.112, F.141 Ligand excluded by PLIP CL.9: 2 residues within 4Å: Chain A: R.34, F.112 Ligand excluded by PLIP

1 x 4MR: 5-(4-PHENOXYPHENYL)-5-(4-PYRIMIDIN-2-YLPIPERAZIN-1-YL)PYRIMIDINE-2,4,6(2H,3H)-TRIONE(Non-covalent)

4MR.10: 16 residues within 4Å: Chain A: L.78, L.79, A.80, L.113, V.114, H.117, Q.118, H.121, H.127, L.134, Y.136, P.137, M.138, Y.139, R.140 Ligands: ZN.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.113, A:V.114, A:H.117, A:Y.139 Hydrogen bonds: A:L.79, A:A.80, A:A.80, A:Q.118 Water bridges: A:A.82 pi-Stacking: A:H.117

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tochowicz, A. et al., Crystal Structures of MMP-9 Complexes with Five Inhibitors: Contribution of the Flexible Arg424 Side-chain to Selectivity. J.Mol.Biol. (2007)

Release Date

2007-06-19

Peptides

Matrix metalloproteinase-9 (EC 3.4.24.35) (MMP-9) (92 kDa type IV collagenase) (92 kDa gelatinase) (Gelatinase B) (GELB): A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Matrix metalloproteinase-9 (EC 3.4.24.35) (MMP-9) (92 kDa type IV collagenase) (92 kDa gelatinase) (Gelatinase B) (GELB)

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