6GP1

Structure of mEos4b in the red long-lived dark state


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.504 Å
  • R-Value Free: 0.304 
  • R-Value Work: 0.249 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Mechanistic investigation of mEos4b reveals a strategy to reduce track interruptions in sptPALM.

De Zitter, E.Thedie, D.Monkemoller, V.Hugelier, S.Beaudouin, J.Adam, V.Byrdin, M.Van Meervelt, L.Dedecker, P.Bourgeois, D.

(2019) Nat.Methods 16: 707-710

  • DOI: 10.1038/s41592-019-0462-3
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Green-to-red photoconvertible fluorescent proteins repeatedly enter dark states, causing interrupted tracks in single-particle-tracking localization microscopy (sptPALM). We identified a long-lived dark state in photoconverted mEos4b that results fro ...

    Green-to-red photoconvertible fluorescent proteins repeatedly enter dark states, causing interrupted tracks in single-particle-tracking localization microscopy (sptPALM). We identified a long-lived dark state in photoconverted mEos4b that results from isomerization of the chromophore and efficiently absorbs cyan light. Addition of weak 488-nm light swiftly reverts this dark state to the fluorescent state. This strategy largely eliminates slow blinking and enables the recording of longer tracks in sptPALM with minimum effort.


    Organizational Affiliation

    University Grenoble Alpes, CEA, CNRS, IBS, Grenoble, France.,Department of Chemistry, KU Leuven, Heverlee, Belgium.,Department of Chemistry, KU Leuven, Heverlee, Belgium. peter.dedecker@kuleuven.be.,University Grenoble Alpes, CEA, CNRS, IBS, Grenoble, France. dominique.bourgeois@ibs.fr.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Green to red photoconvertible GFP-like protein EosFP
A
94Lobophyllia hemprichiiMutation(s): 0 
Find proteins for Q5S6Z9 (Lobophyllia hemprichii)
Go to UniProtKB:  Q5S6Z9
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Green to red photoconvertible GFP-like protein EosFP
B
165Lobophyllia hemprichiiMutation(s): 0 
Find proteins for Q5S6Z9 (Lobophyllia hemprichii)
Go to UniProtKB:  Q5S6Z9
Small Molecules
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
IEY
Query on IEY
B
L-PEPTIDE LINKINGC17 H16 N4 O4HIS, TYR, GLY
NFA
Query on NFA
A
L-PEPTIDE LINKINGC9 H12 N2 OPHE
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.504 Å
  • R-Value Free: 0.304 
  • R-Value Work: 0.249 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 38.700α = 90.00
b = 58.290β = 90.00
c = 104.030γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXphasing
XSCALEdata scaling
XDSdata reduction
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Research Foundation - FlandersBelgium--
Grenoble Instruct-ERIC CenterFranceUMS 3518 CNRS-CEA-UGA-EMBL
FranceANR-10-INBS-05-02
FranceANR-10-LABX-49-01

Revision History 

  • Version 1.0: 2019-05-22
    Type: Initial release
  • Version 1.1: 2019-07-17
    Type: Data collection, Database references
  • Version 1.2: 2019-08-07
    Type: Data collection, Database references