SMTL ID : 6sb9.1

Thermolysin in complex with J28

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.142, E.143, H.146, Y.157, E.166, H.231 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.142, A:H.146, A:E.166, H2O.1, H2O.4

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 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.2, H2O.4, H2O.10 CA.3: 8 residues within 4Å: Chain A: D.138, E.177, D.185, E.187, I.188, G.189, E.190 Ligands: CA.4 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.4: 6 residues within 4Å: Chain A: E.177, N.183, P.184, D.185, E.190 Ligands: CA.3 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.2, H2O.3 CA.5: 5 residues within 4Å: Chain A: Y.193, T.194, I.197, S.198, 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.3, H2O.8

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

DMS.6: 4 residues within 4Å: Chain A: G.259, R.260, D.261, K.262 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.260, A:D.261 Water bridges: A:K.262 Salt bridges: A:D.261 DMS.7: 2 residues within 4Å: Chain A: L.91, G.95 No protein-ligand interaction detected (PLIP) DMS.8: 4 residues within 4Å: Chain A: H.216, S.218, K.219, Y.251 2 PLIP interactions: 2 interactions with chain A pi-Cation interactions: A:H.216, A:Y.251 DMS.9: 3 residues within 4Å: Chain A: Y.28, D.59, N.60 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.28, A:N.60 DMS.10: 9 residues within 4Å: Chain A: N.112, A.113, V.139, H.142, E.143, I.188, L.202, R.203, H.231 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.203, A:R.203 Water bridges: A:H.231 Salt bridges: A:E.143, A:E.166 pi-Cation interactions: A:H.142

1 x 45X: 2-(pyridin-3-yl)ethanamine(Non-covalent)

45X.11: 4 residues within 4Å: Chain A: Y.211, G.212, D.213, I.232 3 PLIP interactions: 3 interactions with chain A Water bridges: A:Y.211, A:D.213, A:H.231

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Magari, F. et al., Thermolysin in complex with J28. To Be Published

Release Date

2020-08-26

Peptides

Thermolysin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

Thermolysin

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