SMTL ID : 3kec.1 (1 other biounit)

Crystal Structure of Human MMP-13 complexed with a phenyl-2H-tetrazole compound

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.119, H.123, H.129 Ligands: HAE.9 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.119, A:H.123, A:H.129 ZN.2: 4 residues within 4Å: Chain A: H.69, D.71, H.84, H.97 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.69, A:D.71, A:H.84, A:H.97

3 x CA: CALCIUM ION(Non-covalent)

CA.3: 7 residues within 4Å: Chain A: D.76, G.77, P.78, S.79, L.81, D.99, E.102 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:D.76, A:G.77, A:S.79, A:L.81, A:D.99, A:E.102 CA.4: 5 residues within 4Å: Chain A: D.59, N.91, Y.92, G.93, D.95 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.59, A:N.91, A:G.93, A:D.95, H2O.1, H2O.1 CA.5: 3 residues within 4Å: Chain A: D.25, D.100, E.102 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.25, A:D.100, A:E.102

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.6: 3 residues within 4Å: Chain A: E.32, K.36, R.52 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.32 Water bridges: A:E.32, A:R.52 Salt bridges: A:K.36, A:R.52 SO4.7: 1 residues within 4Å: Chain A: K.67 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.67

1 x 3KE: 4-{[({3-[2-(4-methoxybenzyl)-2H-tetrazol-5-yl]phenyl}carbonyl)amino]methyl}benzoic acid(Non-covalent)

3KE.8: 20 residues within 4Å: Chain A: K.37, N.112, F.114, L.115, V.116, H.119, E.120, A.135, L.136, F.138, P.139, I.140, Y.141, T.142, Y.143, T.144, K.146, S.147, H.148, F.149 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:F.114, A:L.115, A:H.119, A:Y.141, A:Y.143, A:T.144, A:F.149, A:F.149, A:F.149 Hydrogen bonds: A:N.112, A:N.112, A:T.142, A:T.144 Water bridges: A:H.148, A:M.150 Salt bridges: A:K.37 pi-Stacking: A:H.119

1 x HAE: ACETOHYDROXAMIC ACID(Non-covalent)

HAE.9: 8 residues within 4Å: Chain A: L.81, A.83, H.119, E.120, H.123, H.129, P.139 Ligands: ZN.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.83 Water bridges: A:A.83, A:A.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schnute, M.E. et al., Discovery of (pyridin-4-yl)-2H-tetrazole as a novel scaffold to identify highly selective matrix metalloproteinase-13 inhibitors for the treatment of osteoarthritis. Bioorg.Med.Chem.Lett. (2010)

Release Date

2010-11-10

Peptides

Collagenase 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Collagenase 3

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