SMTL ID : 5fxn.1

Structure of thermolysin solved by SAD from data collected by Direct Data Collection (DDC) using the ESRF RoboDiff goniometer

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

monomer

Ligands

1 x VAL: VALINE(Non-covalent)

VAL.1: 8 residues within 4Å: Chain A: N.111, A.112, L.132, E.142, L.201, R.202, H.230 Ligands: LYS.2 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:L.132, A:L.201 Hydrogen bonds: A:E.142, A:R.202, A:R.202, K.2

1 x LYS: LYSINE(Non-covalent)

LYS.2: 5 residues within 4Å: Chain A: N.110, N.111, F.129, H.230 Ligands: VAL.1 7 PLIP interactions: 6 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: A:N.110, A:N.111, A:N.111 Water bridges: A:H.230, A:H.230, V.1 Salt bridges: A:H.230

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 3 residues within 4Å: Chain A: H.141, H.145, E.165 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.141, A:H.145, A:E.165, A:E.165, H2O.7

4 x CA: CALCIUM ION(Non-covalent)

CA.4: 4 residues within 4Å: Chain A: Y.192, T.193, I.196, D.199 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:Y.192, A:I.196, A:D.199, H2O.8, H2O.8 CA.5: 6 residues within 4Å: Chain A: D.137, E.176, D.184, E.186, E.189 Ligands: CA.7 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.137, A:E.176, A:E.176, A:D.184, A:E.189 CA.6: 3 residues within 4Å: Chain A: D.56, D.58, Q.60 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.56, A:Q.60, H2O.4, H2O.4, H2O.4 CA.7: 5 residues within 4Å: Chain A: E.176, N.182, D.184, E.189 Ligands: CA.5 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.176, A:N.182, A:D.184, A:E.189, H2O.8, H2O.8

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nurizzo, D. et al., Robodiff: Combining a Sample Changer and Goniometer for Highly Automated Macromolecular Crystallography Experiments. Acta Crystallogr.,Sect.D (2016)

Release Date

2016-03-16

Peptides

THERMOLYSIN: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

THERMOLYSIN