SMTL ID : 7zjz.1

catalytically non active S532A mutant of oligopeptidase B from S. proteomaculans

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

4 x SPM: SPERMINE(Non-covalent)

SPM.1: 6 residues within 4Å: Chain A: Y.100, L.129, G.130, G.131, L.132, Y.366 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.100, A:L.132 Hydrogen bonds: A:L.132 SPM.2: 5 residues within 4Å: Chain A: Y.450, Y.452, M.459, G.531, Q.619 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.452 Hydrogen bonds: A:Q.619 Water bridges: A:Y.450 SPM.3: 5 residues within 4Å: Chain A: F.440, R.442, A.517, Q.518, Y.520 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.417, A:R.442, A:A.517 SPM.4: 11 residues within 4Å: Chain A: H.83, S.233, D.234, R.235, H.277, Y.278, H.279, Q.280, E.369, P.370, E.371 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.278 Hydrogen bonds: A:H.83, A:H.279, A:Q.280, A:Q.280, A:Q.280, A:E.369, A:E.371

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Britikov, V.V. et al., Elucidation of the Conformational Transition of Oligopeptidase B by an Integrative Approach Based on the Combination of X-ray, SAXS, and Essential Dynamics Sampling Simulation. Crystals (2022)

Release Date

2023-01-18

Peptides

Oligopeptidase B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Oligopeptidase B