SMTL ID : 1d7x.1

CRYSTAL STRUCTURE OF MMP3 COMPLEXED WITH A MODIFIED PROLINE SCAFFOLD BASED INHIBITOR.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.119, H.123, H.129 Ligands: SPC.11 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 ZN.6: 4 residues within 4Å: Chain B: H.119, H.123, H.129 Ligands: SPC.12 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.119, B:H.123, B:H.129 ZN.7: 4 residues within 4Å: Chain B: H.69, D.71, H.84, H.97 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.69, B:D.71, B:H.84, B:H.97

6 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: D.76, G.77, G.79, V.81, D.99, E.102 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:D.76, A:G.77, A:G.79, A:V.81, A:D.99, A:E.102 CA.4: 3 residues within 4Å: Chain A: D.25, D.100, E.102 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.25, A:D.100, A:D.100, H2O.2586, H2O.2586 CA.5: 5 residues within 4Å: Chain A: A.58, D.59, G.91, N.93, D.95 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.59, A:G.91, A:N.93, A:D.95, H2O.2587, H2O.2587 CA.8: 7 residues within 4Å: Chain B: D.76, G.77, P.78, G.79, V.81, D.99, E.102 6 PLIP interactions: 6 interactions with chain B Metal complexes: B:D.76, B:G.77, B:G.79, B:V.81, B:D.99, B:E.102 CA.9: 3 residues within 4Å: Chain B: D.25, D.100, E.102 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.25, B:D.100, B:D.100, B:E.102, H2O.2591 CA.10: 5 residues within 4Å: Chain B: D.59, G.91, I.92, N.93, D.95 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.59, B:G.91, B:N.93, B:D.95, H2O.2592

2 x SPC: N-HYDROXY 1N(4-METHOXYPHENYL)SULFONYL-4-(Z,E-N-METHOXYIMINO)PYRROLIDINE-2R-CARBOXAMIDE(Non-covalent)

SPC.11: 17 residues within 4Å: Chain A: N.80, V.81, L.82, A.83, V.116, H.119, E.120, H.123, H.129, L.136, P.139, L.140, Y.141 Chain B: Q.154, E.172, T.173 Ligands: ZN.1 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:V.116 Hydrogen bonds: A:L.82, A:A.83 Water bridges: A:Y.141, B:E.172 SPC.12: 14 residues within 4Å: Chain B: N.80, V.81, L.82, A.83, L.115, V.116, H.119, E.120, H.123, H.129, P.139, L.140, Y.141 Ligands: ZN.6 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:V.116, B:Y.141 Hydrogen bonds: B:L.82, B:A.83 pi-Stacking: B:H.119

Links

RCSB   PDBsum   PDBe   CATH   PLIP

Citation

Cheng, M. et al., Design, synthesis, and biological evaluation of matrix metalloproteinase inhibitors derived from a modified proline scaffold. J.Med.Chem. (1999)

Peptides

STROMELYSIN-1 PRECURSOR: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

STROMELYSIN-1 PRECURSOR

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