3E5T

Crystal Structure Analysis of FP611


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.1 Å
  • R-Value Free: 0.168 
  • R-Value Work: 0.116 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Trans-cis isomerization is responsible for the red-shifted fluorescence in variants of the red fluorescent protein eqFP611.

Nienhaus, K.Nar, H.Heilker, R.Wiedenmann, J.Nienhaus, G.U.

(2008) J.Am.Chem.Soc. 130: 12578-12579

  • DOI: 10.1021/ja8046443
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • An important class of red fluorescent proteins (RFPs) feature a 2-iminomethyl-5-(4-hydroxybenzylidene)imidazolinone chromophore. Among these proteins, eqFP611 has the chromophore in a coplanar trans orientation, whereas the cis isomer is preferred by ...

    An important class of red fluorescent proteins (RFPs) feature a 2-iminomethyl-5-(4-hydroxybenzylidene)imidazolinone chromophore. Among these proteins, eqFP611 has the chromophore in a coplanar trans orientation, whereas the cis isomer is preferred by other RFPs such as DsRed and its variants. In the photoactivatable protein asFP595, the chromophore can even be switched from the nonfluorescent trans to the fluorescent cis state by light. By using X-ray crystallography, we have determined the structure of dimeric eqFP611 at high resolution (up to 1.1 A). In the far-red emitting eqFP611 variant d2RFP630, which carries an additional Asn143Ser mutation, the chromophore resides predominantly (approximately 80%) in the cis isomeric state, and in RFP639, which has Asn143Ser and Ser158Cys mutations, the chromophore is found completely in the cis form. The pronounced red shift of excitation and emission maxima of RFP639 can thus unambiguously be assigned to trans-cis isomerization of the chromophore. Among RFPs, eqFP611 is thus unique because its chromophore is highly fluorescent in both the cis and trans isomeric forms.


    Organizational Affiliation

    Institute of Biophysics, University of Ulm, Albert-Einstein-Allee 11, 89081 Ulm, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Red fluorescent protein eqFP611
A
244Entacmaea quadricolorMutation(s): 1 
Find proteins for Q8ISF8 (Entacmaea quadricolor)
Go to UniProtKB:  Q8ISF8
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
NRQ
Query on NRQ
A
L-PEPTIDE LINKINGC16 H17 N3 O4 SMET,TYR,GLY
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.1 Å
  • R-Value Free: 0.168 
  • R-Value Work: 0.116 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 84.638α = 90.00
b = 69.416β = 90.00
c = 41.369γ = 90.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
DENZOdata reduction
SHELXrefinement
PHASERphasing
SHELXL-97refinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-09-23
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2017-10-25
    Type: Refinement description