1E5T

PROLYL OLIGOPEPTIDASE FROM PORCINE BRAIN, MUTANT

• PDB DOI: https://doi.org/10.2210/pdb1E5T/pdb

• Classification: HYDROLASE
• Organism(s): Sus scrofa
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2000-08-02 Released: 2000-10-01 
• Deposition Author(s): Fulop, V.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.206 
• R-Value Work: 0.184 
• R-Value Observed: 0.184 

Starting Model: experimental

Literature

Catalysis of Serine Oligopeptidases is Controlled by a Gating Filter Mechanism

Fulop, V., Szeltner, Z., Polgar, L.

(2000) EMBO Rep 1: 277

• PubMed: 11256612 
• DOI: https://doi.org/10.1093/embo-reports/kvd048
• Primary Citation of Related Structures:  
  1E5T


• PubMed Abstract: 
  

  Proteases have a variety of strategies for selecting substrates in order to prevent uncontrolled protein degradation. A recent crystal structure determination of prolyl oligopeptidase has suggested a way for substrate selection involving an unclosed seven-bladed beta-propeller domain. We have engineered a disulfide bond between the first and seventh blades of the propeller, which resulted in the loss of enzymatic activity. These results provided direct evidence for a novel strategy of regulation in which oscillating propeller blades act as a gating filter during catalysis, letting small peptide substrates into the active site while excluding large proteins to prevent accidental proteolysis.

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Organizational Affiliation: 

Department of Biological Sciences, University of Warwick, Coventry, UK.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 81.67 kDa 
• Atom Count: 6,618 
• Modelled Residue Count: 710 
• Deposited Residue Count: 710 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROLYL ENDOPEPTIDASE	A	710	Sus scrofa	Mutation(s): 3  EC: 3.4.21.26
UniProt
Find proteins for P23687 (Sus scrofa) Explore P23687  Go to UniProtKB:  P23687

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	B [auth A], C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.206 
• R-Value Work: 0.184 
• R-Value Observed: 0.184 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.7	α = 90
b = 99.7	β = 90
c = 110.9	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-10-01 
Deposition Author(s): Fulop, V.

Revision History  

• Version 1.0: 2000-10-01
  Type: Initial release
  
• Version 1.1: 2011-08-31
  Changes: Data collection, Derived calculations, Non-polymer description, Other, Source and taxonomy, Structure summary, Version format compliance
• Version 1.2: 2019-07-24
  Changes: Data collection, Derived calculations
• Version 1.3: 2023-12-13
  Changes: Data collection, Database references, Derived calculations, Refinement description