4RSL

Structure of fructosyl peptide oxidase from E. terrenum

• PDB DOI: https://doi.org/10.2210/pdb4RSL/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Penicillium terrenum
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-11-08 Released: 2015-05-20 
• Deposition Author(s): Gan, W., Gao, F., Xing, K., Jia, M., Liu, H., Gong, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.233 
• R-Value Work: 0.191 
• R-Value Observed: 0.193 

Literature

Structural basis of the substrate specificity of the FPOD/FAOD family revealed by fructosyl peptide oxidase from Eupenicillium terrenum

Gan, W., Gao, F., Xing, K., Jia, M., Liu, H., Gong, W.

(2015) Acta Crystallogr F Struct Biol Commun 71: 381-387

• PubMed: 25849495 
• DOI: https://doi.org/10.1107/S2053230X15003921
• Primary Citation of Related Structures:  
  4RSL


• PubMed Abstract: 
  

  The FAOD/FPOD family of proteins has the potential to be useful for the longterm detection of blood glucose levels in diabetes patients. A bottleneck for this application is to find or engineer a FAOD/FPOD family enzyme that is specifically active towards α-fructosyl peptides but is inactive towards other types of glycated peptides. Here, the crystal structure of fructosyl peptide oxidase from Eupenicillium terrenum (EtFPOX) is reported at 1.9 Å resolution. In contrast to the previously reported structure of amadoriase II, EtFPOX has an open substrate entrance to accommodate the large peptide substrate. The functions of residues critical for substrate selection are discussed based on structure comparison and sequence alignment. This study reveals the first structural details of group I FPODs that prefer α-fructosyl substrates and could provide significant useful information for uncovering the mechanism of substrate specificity of FAOD/FPODs and guidance towards future enzyme engineering for diagnostic purposes.

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Organizational Affiliation: 

Key Laboratory of RNA, Institute of Biophysics, Chinese Academy of Sciences, 15 Datun Road, Beijing 100101, People's Republic of China.

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: 50.2 kDa 
• Atom Count: 3,725 
• Modelled Residue Count: 436 
• Deposited Residue Count: 445 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fructosyl peptide oxidase	A	445	Penicillium terrenum	Mutation(s): 0  Gene Names: fpoxE EC: 1.5.3
UniProt
Find proteins for Q765A9 (Penicillium terrenum) Explore Q765A9  Go to UniProtKB:  Q765A9

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FAD	C [auth A]	FLAVIN-ADENINE DINUCLEOTIDE C27 H33 N9 O15 P2 VWWQXMAJTJZDQX-UYBVJOGSSA-N
PO4	B [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.233 
• R-Value Work: 0.191 
• R-Value Observed: 0.193 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.603	α = 90
b = 80.018	β = 90
c = 83.418	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-05-20 
Deposition Author(s): Gan, W., Gao, F., Xing, K., Jia, M., Liu, H., Gong, W.

Revision History  

• Version 1.0: 2015-05-20
  Type: Initial release
  
• Version 1.1: 2024-03-20
  Changes: Data collection, Database references, Derived calculations