SMTL ID : 1caq.2 (1 other biounit)

X-RAY STRUCTURE OF HUMAN STROMELYSIN CATALYTIC DOMAIN COMPLEXES WITH NON-PEPTIDE INHIBITORS: IMPLICATION FOR INHIBITOR SELECTIVITY

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 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: DPS.7 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.119, A:H.123, A:H.129 ZN.2: 5 residues within 4Å: Chain A: H.69, D.71, H.84, Y.86, 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.8: 4 residues within 4Å: Chain B: H.119, H.123, H.129 Ligands: DPS.14 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.119, B:H.123, B:H.129 ZN.9: 5 residues within 4Å: Chain B: H.69, D.71, H.84, Y.86, 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.5: 4 residues within 4Å: Chain A: 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.3, H2O.3 CA.6: 4 residues within 4Å: Chain A: T.23, D.25, D.100, E.102 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.25, A:D.100, A:D.100, A:E.102, H2O.3 CA.10: 6 residues within 4Å: Chain B: D.76, G.77, 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.12: 4 residues within 4Å: Chain B: D.59, G.91, N.93, D.95 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.59, B:G.91, B:N.93, B:D.95, H2O.6, H2O.6 CA.13: 4 residues within 4Å: Chain B: T.23, 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.6

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

SO4.4: 5 residues within 4Å: Chain A: P.27, K.28 Chain B: P.27, K.28 Ligands: SO4.11 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:K.28, A:K.28 Salt bridges: B:K.28, A:K.28 Water bridges: A:D.29, A:D.29 SO4.11: 5 residues within 4Å: Chain A: P.27, K.28 Chain B: P.27, K.28 Ligands: SO4.4 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:K.28, A:K.28 Water bridges: B:D.29, B:D.29 Salt bridges: B:K.28, A:K.28

2 x DPS: 3-(1H-INDOL-3-YL)-2-[4-(4-PHENYL-PIPERIDIN-1-YL)-BENZENESULFONYLAMINO]-PROPIONIC ACID(Non-covalent)

DPS.7: 20 residues within 4Å: Chain A: F.4, V.81, L.82, A.83, A.85, L.115, H.119, E.120, H.123, F.128, H.129, A.135, L.136, Y.138, P.139, L.140, Y.141, H.142, L.144 Ligands: ZN.1 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.4, A:L.115, A:F.128, A:L.144 Hydrogen bonds: A:A.83, A:A.83 Salt bridges: A:H.119, A:H.123, A:H.129 pi-Stacking: A:H.119, A:H.123, A:H.129, A:H.142 DPS.14: 20 residues within 4Å: Chain B: F.4, V.81, L.82, A.83, A.85, L.115, H.119, E.120, H.123, F.128, H.129, A.135, L.136, Y.138, P.139, L.140, Y.141, H.142, L.144 Ligands: ZN.8 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:F.4, B:L.115, B:F.128, B:L.144 Hydrogen bonds: B:A.83, B:A.83 Salt bridges: B:H.119, B:H.123, B:H.129 pi-Stacking: B:H.119, B:H.123, B:H.129, B:H.142

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pavlovsky, A.G. et al., X-ray structure of human stromelysin catalytic domain complexed with nonpeptide inhibitors: implications for inhibitor selectivity. Protein Sci. (1999)

Release Date

1999-07-07

Peptides

PROTEIN (STROMELYSIN-1): AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

PROTEIN (STROMELYSIN-1)

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