SMTL ID : 4tln.1

BINDING OF HYDROXAMIC ACID INHIBITORS TO CRYSTALLINE THERMOLYSIN SUGGESTS A PENTACOORDINATE ZINC INTERMEDIATE IN CATALYSIS

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: D.138, E.177, D.185, E.187, E.190 Ligands: CA.2 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.177, A:E.177, A:D.185, A:E.190, A:E.190 CA.2: 6 residues within 4Å: Chain A: E.177, K.182, N.183, D.185, E.190 Ligands: CA.1 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.177, A:N.183, A:D.185, A:E.190, H2O.1, H2O.5 CA.3: 3 residues within 4Å: Chain A: D.57, D.59, Q.61 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.57, A:D.59, A:Q.61, H2O.3, H2O.6 CA.4: 4 residues within 4Å: Chain A: Y.193, T.194, I.197, D.200 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:Y.193, A:T.194, A:D.200, H2O.1, H2O.6

1 x ZN: ZINC ION(Non-covalent)

ZN.5: 5 residues within 4Å: Chain A: H.142, H.146, Y.157, E.166 Ligands: LNO.6 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.142, A:H.146, A:E.166, A:E.166, LNO.6

1 x LNO: L-LEUCYL-HYDROXYLAMINE(Non-covalent)

LNO.6: 11 residues within 4Å: Chain A: N.112, A.113, H.142, E.143, H.146, Y.157, E.166, L.202, R.203, H.231 Ligands: ZN.5 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.202 Hydrogen bonds: A:H.231 Water bridges: A:Y.157, A:Y.157

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Holmes, M.A. et al., Binding of hydroxamic acid inhibitors to crystalline thermolysin suggests a pentacoordinate zinc intermediate in catalysis. Biochemistry (1981)

Release Date

1982-05-26

Peptides

THERMOLYSIN: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

THERMOLYSIN

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