SMTL ID : 3fvp.1

Thermolysin inhibition

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.41 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: 5 residues within 4Å: Chain A: E.177, 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.7, H2O.8 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.57, A:Q.61, H2O.5, H2O.8, H2O.8 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.8, H2O.8

1 x ZN: ZINC ION(Non-covalent)

ZN.5: 6 residues within 4Å: Chain A: H.142, H.146, Y.157, E.166, H.231 Ligands: UB2.7 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.142, A:H.146, A:E.166, A:E.166

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 6 residues within 4Å: Chain A: F.114, W.115, E.143, H.146, Y.157 Ligands: UB2.7 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.115, A:E.143, A:N.165 Water bridges: A:D.150 GOL.9: 5 residues within 4Å: Chain A: G.109, Y.110, N.111, N.112 Ligands: DMS.8 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.109, A:N.111, A:N.111, A:N.112 Water bridges: A:N.111 GOL.10: 5 residues within 4Å: Chain A: T.152, Q.273, Y.274, L.275, T.276 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.152, A:Q.273

1 x UB2: N-[(S)-({[(benzyloxy)carbonyl]amino}methyl)(hydroxy)phosphoryl]-L-alanyl-L-leucine(Non-covalent)

UB2.7: 17 residues within 4Å: Chain A: N.111, N.112, A.113, F.114, W.115, N.116, F.130, H.142, E.143, H.146, Y.157, E.166, R.203, H.231 Ligands: ZN.5, GOL.6, DMS.8 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.114, A:F.130, A:F.130 Hydrogen bonds: A:N.112, A:N.112, A:N.112, A:Y.157, A:Y.157, A:R.203, A:R.203 Water bridges: A:H.231, A:H.231 Salt bridges: A:H.231

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.8: 5 residues within 4Å: Chain A: Y.110, N.112, F.114 Ligands: UB2.7, GOL.9 1 PLIP interactions: 1 interactions with chain A pi-Cation interactions: A:F.114 DMS.11: 3 residues within 4Å: Chain A: H.216, S.218, Y.251 2 PLIP interactions: 2 interactions with chain A pi-Cation interactions: A:H.216, A:Y.251

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Englert, L. et al., Thermolysin inhibition. To be Published

Release Date

2010-02-09

Peptides

Thermolysin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Thermolysin

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