SMTL ID : 1tmn.1

Binding of n-carboxymethyl dipeptide inhibitors to thermolysin determined by x-ray crystallography. a novel class of transition-state analogues for zinc peptidases

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x 0ZN: N-[(1R)-1-carboxy-3-phenylpropyl]-L-leucyl-L-tryptophan(Non-covalent)

0ZN.1: 16 residues within 4Å: Chain A: Y.110, N.111, N.112, A.113, F.114, F.130, V.139, H.142, E.143, H.146, Y.157, E.166, L.202, R.203, H.231 Ligands: ZN.6 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:V.139, A:L.202, A:L.202 Hydrogen bonds: A:N.111, A:N.112, A:N.112, A:N.112, A:R.203, A:R.203 Salt bridges: A:H.142, A:H.146, A:H.231, A:H.231 pi-Stacking: A:F.130

4 x CA: CALCIUM ION(Non-covalent)

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

1 x ZN: ZINC ION(Non-covalent)

ZN.6: 5 residues within 4Å: Chain A: H.142, H.146, Y.157, E.166 Ligands: 0ZN.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.142, A:H.146, A:E.166, A:E.166

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Monzingo, A.F. et al., Binding of N-carboxymethyl dipeptide inhibitors to thermolysin determined by X-ray crystallography: a novel class of transition-state analogues for zinc peptidases. Biochemistry (1984)

Release Date

1989-01-09

Peptides

THERMOLYSIN: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

THERMOLYSIN

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