SMTL ID : 1ks7.1

Thermolysin complexed with Z-D-Aspartic acid (benzyloxycarbonyl-D-Aspartic acid)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 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:D.138, A:E.177, A:E.177, A:D.185, 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.2 CA.3: 3 residues within 4Å: Chain A: D.57, D.59, Q.61 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.59, A:Q.61, H2O.1, H2O.1, H2O.1 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:I.197, A:D.200, H2O.1, H2O.2

1 x ZN: ZINC ION(Non-covalent)

ZN.5: 5 residues within 4Å: Chain A: H.142, H.146, Y.157, E.166 Ligands: DAS.7 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.142, A:H.146, A:E.166

1 x PHQ: benzyl chlorocarbonate(Non-covalent)

PHQ.6: 10 residues within 4Å: Chain A: N.112, A.113, L.133, V.139, H.142, E.143, I.188, L.202, R.203 Ligands: DAS.7 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.139, A:V.139, A:I.188, A:L.202 Hydrogen bonds: A:N.112 Water bridges: A:R.203 pi-Stacking: A:H.142

1 x DAS: D-ASPARTIC ACID(Non-covalent)

DAS.7: 10 residues within 4Å: Chain A: N.112, A.113, H.142, E.143, H.146, Y.157, E.166, H.231 Ligands: ZN.5, PHQ.6 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.112, A:A.113, A:A.113 Water bridges: A:Y.157 Salt bridges: A:H.142, A:H.146, A:H.231

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Senda, M. et al., Crystal structure analyses of thermolysin in complex with its inhibitors. To be Published

Release Date

2003-01-11

Peptides

Thermolysin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Thermolysin

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