SMTL ID : 6sck.1

THERMOLYSIN IN COMPLEX WITH FRAGMENT J77

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.41 Å

Oligo State

monomer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 8 residues within 4Å: Chain A: D.138, E.177, D.185, E.187, I.188, G.189, 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.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.9 CA.3: 6 residues within 4Å: Chain A: E.177, N.183, P.184, 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.3, H2O.3 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.3, H2O.8

1 x ZN: ZINC ION(Non-covalent)

ZN.5: 5 residues within 4Å: Chain A: H.142, 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.2, H2O.2

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.6: 10 residues within 4Å: Chain A: N.112, A.113, L.133, V.139, H.142, E.143, E.166, L.202, R.203, H.231 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.113, A:E.143, A:R.203, A:R.203, A:H.231

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

DMS.7: 2 residues within 4Å: Chain A: G.3, T.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.4 Water bridges: A:S.5 DMS.8: 5 residues within 4Å: Chain A: G.109, D.124, G.125, D.126, G.127 No protein-ligand interaction detected (PLIP) DMS.9: 2 residues within 4Å: Chain A: L.91, G.95 No protein-ligand interaction detected (PLIP) DMS.10: 5 residues within 4Å: Chain A: F.114, W.115, E.143, H.146, Y.157 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.115 pi-Cation interactions: A:H.146 DMS.11: 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.12: 4 residues within 4Å: Chain A: H.216, S.218, K.219, Y.251 1 PLIP interactions: 1 interactions with chain A pi-Cation interactions: A:H.216

1 x DAR: D-ARGININE(Non-covalent)

DAR.13: 8 residues within 4Å: Chain A: Y.193, S.201, L.202, R.203, Y.211, D.213, H.231, I.232 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:R.203 Hydrogen bonds: A:L.202, A:D.213 Water bridges: A:Y.193, A:R.203, A:R.203 Salt bridges: A:R.203, A:H.231

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Magari, F. et al., THERMOLYSIN IN COMPLEX WITH FRAGMENT J77. To Be Published

Release Date

2020-08-26

Peptides

Thermolysin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

Thermolysin

Related Entries With Identical Sequence