SMTL ID : 3kek.2 (1 other biounit)

Crystal Structure of Human MMP-13 complexed with a (pyridin-4-yl)-2H-tetrazole compound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.97 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.119, E.120, H.123, H.129 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.119, A:H.123, A:H.129, H2O.3, H2O.5 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: A.58, D.59, N.91, G.93, D.95 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.59, A:N.91, A:D.95 CA.5: 3 residues within 4Å: Chain A: D.25, E.102, T.103 No protein-ligand interaction detected (PLIP)

1 x 3EK: trans-4-[(3-{2-[(4-fluorobenzyl)carbamoyl]-6-methylpyridin-4-yl}-1H-1,2,4-triazol-1-yl)methyl]cyclohexanecarboxylic acid(Non-covalent)

3EK.6: 21 residues within 4Å: Chain A: K.37, N.112, F.114, L.115, V.116, H.119, G.134, 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, P.152 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:F.114, A:L.115, A:L.115, A:H.119, A:L.136, A:T.144, A:P.152 Hydrogen bonds: A:N.112, A:A.135, A:T.142, A:T.144 Salt bridges: A:K.37 pi-Stacking: A:H.119, A:Y.141, A:Y.143

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. (2009)

Release Date

2010-11-10

Peptides

Collagenase 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Collagenase 3

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