Rational Design of Enhanced Photoresistance in a Photoswitchable Fluorescent Protein

Experimental Data Snapshot

  • Resolution: 2.00 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.202 

wwPDB Validation   3D Report Full Report

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Rational design of enhanced photoresistance in a photoswitchable fluorescent protein.

Duan, C.Byrdin, M.El Khatib, M.Henry, X.Adam, V.Bourgeois, D.

(2015) Methods Appl Fluoresc 3: 014004-014004

  • DOI: https://doi.org/10.1088/2050-6120/3/1/014004
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Fluorescent proteins are particularly susceptible to photobleaching, the permanent loss of fluorescence emission resulting from photodestruction of the chromophore. In the case of Reversibly Switchable Fluorescent Proteins (RSFPs), which can be switched back and forth between a non-fluorescent and a fluorescent state, the achievable number of switching cycles is limited by photobleaching, a process known as photofatigue. Photofatigue has become a crucial limitation in a number of advanced applications based on repeated photoswitching of RSFPs, notably in the field of super-resolution fluorescence microscopy. Here, based on our previous structural investigation of photobleaching mechanisms in IrisFP, an RSFP also capable of green-to-red photoconversion, we present the rational design of a single-mutant IrisFP-M159A that displays considerably enhanced photostability. The results suggest that, under moderate illumination intensities, photobleaching of IrisFP-like Anthozoan fluorescent proteins such as EosFP, Dendra or Dronpa derivatives is mainly driven by an oxygen-dependent mechanism resulting in the irreversible sulfoxidation of methionine 159. The photofatigue decay profiles of IrisFP and its photoresistant mutant IrisFP-M159A were investigated in different experimental conditions, in vitro and in cellulo. Although the performance of the mutant was found to be always superior, the results showed switching behaviors strongly dependent on the nanoenvironment. Thus, in general, assessment of photostability and switching properties of RSFPs should be carried out in real experimental conditions.

  • Organizational Affiliation

    Univ. Grenoble Alpes, IBS, F-38044 Grenoble, France. CNRS, IBS, F-38044 Grenoble, France. CEA, IBS, F-38044 Grenoble, France.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Green to red photoconvertible GFP-like protein EosFP
A, B, C, D
230Lobophyllia hemprichiiMutation(s): 4 
Find proteins for Q5S6Z9 (Lobophyllia hemprichii)
Explore Q5S6Z9 
Go to UniProtKB:  Q5S6Z9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5S6Z9
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on SO4

Download Ideal Coordinates CCD File 
E [auth A]
F [auth A]
G [auth A]
I [auth A]
K [auth B]
E [auth A],
F [auth A],
G [auth A],
I [auth A],
K [auth B],
L [auth B],
M [auth B],
N [auth C],
O [auth C],
P [auth C],
R [auth D],
S [auth D],
T [auth D],
U [auth D],
V [auth D]
O4 S
Query on SO3

Download Ideal Coordinates CCD File 
H [auth A],
J [auth A],
Q [auth C],
W [auth D]
O3 S
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
Query on CR8
A, B, C, D
Experimental Data & Validation

Experimental Data

  • Resolution: 2.00 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.202 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 86.701α = 90
b = 96.35β = 90
c = 139.426γ = 90
Software Package:
Software NamePurpose
MxCuBEdata collection
XDSdata reduction
XDSdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-02-04
    Type: Initial release
  • Version 1.1: 2015-11-11
    Changes: Database references, Structure summary
  • Version 1.2: 2018-04-18
    Changes: Advisory, Data collection, Database references
  • Version 1.3: 2023-09-20
    Changes: Advisory, Data collection, Database references, Derived calculations, Refinement description
  • Version 2.0: 2023-11-15
    Changes: Atomic model, Data collection, Derived calculations