SMTL ID : 7ob1.1

OLIGOPEPTIDASE B FROM S. PROTEOMACULANS WITH MODIFIED HINGE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

5 x SPM: SPERMINE(Non-covalent)

SPM.1: 6 residues within 4Å: Chain A: Y.80, Y.100, L.129, G.130, L.132, Y.366 No protein-ligand interaction detected (PLIP) SPM.2: 6 residues within 4Å: Chain A: D.167, E.168, G.207, T.208, D.209, P.210 No protein-ligand interaction detected (PLIP) SPM.3: 6 residues within 4Å: Chain A: Y.450, Y.452, M.459, G.531, Q.555 Ligands: SPM.5 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.452 SPM.4: 3 residues within 4Å: Chain A: W.363, T.386, A.462 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.462 SPM.5: 7 residues within 4Å: Chain A: Y.450, S.458, M.459, D.460, R.467, F.477 Ligands: SPM.3 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.450 Hydrogen bonds: A:S.458, A:D.460 Water bridges: A:R.467, A:Q.555

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Petrenko, D.E. et al., First Crystal Structure of Bacterial Oligopeptidase B in an Intermediate State: The Roles of the Hinge Region Modification and Spermine. Biology (Basel) (2021)

Release Date

2021-05-19

Peptides

Oligopeptidase B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Oligopeptidase B

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