2WSN

Structure of Enhanced Cyan Fluorescent Protein at physiological pH


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.37 Å
  • R-Value Free: 0.185 
  • R-Value Work: 0.140 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Intrinsic Dynamics in Ecfp and Cerulean Control Fluorescence Quantum Yield.

Lelimousin, M.Noirclerc-Savoye, M.Lazareno-Saez, C.Paetzold, B.Le Vot, S.Chazal, R.Macheboeuf, P.Field, M.J.Bourgeois, D.Royant, A.

(2009) Biochemistry 48: 10038

  • DOI: 10.1021/bi901093w
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Enhanced cyan fluorescent protein (ECFP) and its variant Cerulean are genetically encoded fluorophores widely used as donors in FRET-based cell imaging experiments. First, we have confirmed through denaturation experiments that the double-peak spectr ...

    Enhanced cyan fluorescent protein (ECFP) and its variant Cerulean are genetically encoded fluorophores widely used as donors in FRET-based cell imaging experiments. First, we have confirmed through denaturation experiments that the double-peak spectroscopic signature of these fluorescent proteins originates from the indole ring of the chromophore. Then, to explain the improvement in the fluorescence properties of Cerulean compared to those of ECFP, we have determined the high-resolution crystal structures of these two proteins at physiological pH and performed molecular dynamics simulations. In both proteins, the N-terminal half of the seventh strand exhibits two conformations. These conformations both have a complex set of van der Waals interactions with the chromophore and, as our simulations suggest, they interconvert on a nanosecond time scale. The Y145A and H148D mutations in Cerulean stabilize these interactions and allow the chromophore to be more planar, better packed, and less prone to collisional quenching, albeit only intermittently. As a consequence, the probability of nonradiative decay is significantly decreased. Our results highlight the considerable dynamical flexibility that exists in the vicinity of the tryptophan-based chromophore of these engineered fluorescent proteins and provide insights that should allow the design of mutants with enhanced optical properties.


    Related Citations: 
    • Expansion of the Genetic Code Enables Design of a Novel "Gold" Class of Green Fluorescent Proteins.
      Bae, J.H.,Rubini, M.,Jung, G.,Wiegand, G.,Seifert, M.H.J.,Azim, M.K.,Kim, J.S.,Zumbusch, A.,Holak, T.A.,Moroder, L.,Huber, R.,Budisa, N.
      (2003) J.Mol.Biol. 328: 1071


    Organizational Affiliation

    Institut de Biologie Structurale Jean-Pierre Ebel, UMR 5075 CNRS-CEA-Universite Joseph Fourier, F-38027 Grenoble Cedex 1, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
GREEN FLUORESCENT PROTEIN
A
239Aequorea victoriaMutation(s): 0 
Gene Names: GFP
Find proteins for P42212 (Aequorea victoria)
Go to UniProtKB:  P42212
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
CRF
Query on CRF
A
L-PEPTIDE LINKINGC17 H18 N4 O4THR, TRP, GLY
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.37 Å
  • R-Value Free: 0.185 
  • R-Value Work: 0.140 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 51.182α = 90.00
b = 62.720β = 90.00
c = 70.593γ = 90.00
Software Package:
Software NamePurpose
MOLREPphasing
XDSdata reduction
XSCALEdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-09-29
    Type: Initial release
  • Version 1.1: 2011-05-08
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2019-10-23
    Type: Data collection, Database references, Derived calculations, Other