8AM4

Cl-rsEGFP2 Long Wavelength Structure


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.02 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.196 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Serial Femtosecond Crystallography Reveals that Photoactivation in a Fluorescent Protein Proceeds via the Hula Twist Mechanism.

Fadini, A.Hutchison, C.D.M.Morozov, D.Chang, J.Maghlaoui, K.Perrett, S.Luo, F.Kho, J.C.X.Romei, M.G.Morgan, R.M.L.Orr, C.M.Cordon-Preciado, V.Fujiwara, T.Nuemket, N.Tosha, T.Tanaka, R.Owada, S.Tono, K.Iwata, S.Boxer, S.G.Groenhof, G.Nango, E.van Thor, J.J.

(2023) J Am Chem Soc 

  • DOI: https://doi.org/10.1021/jacs.3c02313
  • Primary Citation of Related Structures:  
    8A6G, 8A6N, 8A6O, 8A6P, 8A6Q, 8A6R, 8A6S, 8A7V, 8A83, 8AM4

  • PubMed Abstract: 

    Chromophore cis/trans photoisomerization is a fundamental process in chemistry and in the activation of many photosensitive proteins. A major task is understanding the effect of the protein environment on the efficiency and direction of this reaction compared to what is observed in the gas and solution phases. In this study, we set out to visualize the hula twist (HT) mechanism in a fluorescent protein, which is hypothesized to be the preferred mechanism in a spatially constrained binding pocket. We use a chlorine substituent to break the twofold symmetry of the embedded phenolic group of the chromophore and unambiguously identify the HT primary photoproduct. Through serial femtosecond crystallography, we then track the photoreaction from femtoseconds to the microsecond regime. We observe signals for the photoisomerization of the chromophore as early as 300 fs, obtaining the first experimental structural evidence of the HT mechanism in a protein on its femtosecond-to-picosecond timescale. We are then able to follow how chromophore isomerization and twisting lead to secondary structure rearrangements of the protein β-barrel across the time window of our measurements.


  • Organizational Affiliation

    Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London SW7 2AZ, U.K.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Green fluorescent protein250Aequorea victoriaMutation(s): 6 
Gene Names: GFP
UniProt
Find proteins for P42212 (Aequorea victoria)
Explore P42212 
Go to UniProtKB:  P42212
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP42212
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
OHD
Query on OHD
A
L-PEPTIDE LINKINGC14 H14 Cl N3 O4ALA, TYR, GLY
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.02 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.196 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 50.915α = 90
b = 63.25β = 90
c = 70.587γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
CRANK2phasing
GDAdata collection
SHELXCDphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Imperial College LondonUnited KingdomPresident's PhD Scholarship
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/P00752X/1

Revision History  (Full details and data files)

  • Version 1.0: 2023-08-02
    Type: Initial release
  • Version 1.1: 2024-01-31
    Changes: Data collection