SMTL ID : 8jud.1

Crystal structure of human MMP-7 in complex with inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x 7SF- GGL- GLY- LEU- TBG- EOE- NH2: Peptide Inhibitor(Non-covalent)

7SF-GGL-GLY-LEU-TBG-EOE-NH2.1: 18 residues within 4Å: Chain A: F.6, T.83, L.84, A.85, H.86, A.87, F.88, A.89, G.95, Y.118, A.119, H.122, Q.123, H.126, H.132, P.142, Y.144 Ligands: ZN.5 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:F.88, A:F.88 Hydrogen bonds: A:L.84, A:A.85, A:A.85, A:A.85, A:A.87, A:A.87, A:A.89, A:Q.123 Water bridges: A:T.83, A:H.132 Salt bridges: A:H.122, A:H.126, A:H.132 pi-Stacking: A:H.122 Halogen bonds: A:A.119

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: D.61, G.93, L.94, G.95, D.97 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.61, A:G.93, A:G.95, A:D.97, H2O.1, H2O.2 CA.3: 6 residues within 4Å: Chain A: D.78, G.79, G.81, T.83, D.101, E.104 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:D.78, A:G.79, A:G.81, A:T.83, A:D.101, A:E.104

2 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain A: H.71, D.73, H.86, H.99 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.71, A:D.73, A:H.86, A:H.99 ZN.5: 4 residues within 4Å: Chain A: H.122, H.126, H.132 Ligands: 7SF-GGL-GLY-LEU-TBG-EOE-NH2.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.122, A:H.126, A:H.132

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abe-Sato, K. et al., Structure-Based Optimization and Biological Evaluation of Potent and Selective MMP-7 Inhibitors for Kidney Fibrosis. J.Med.Chem. (2023)

Release Date

2023-11-01

Peptides

Matrilysin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Matrilysin

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