2J96

The E-configuration of alfa-Phycoerythrocyanin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.309 
  • R-Value Work: 0.235 
  • R-Value Observed: 0.235 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural Basis for the Photochemistry of Alfa-Phycoerythrocyanin

Schmidt, M.Patel, A.Zhao, Y.Reuter, W.

(2007) Biochemistry 46: 416

  • DOI: 10.1021/bi061844j
  • Primary Citation of Related Structures:  
    2J96

  • PubMed Abstract: 
  • Phycobiliproteins and phytochromes are light-harvesting and light-sensing proteins containing linear tetrapyrroles, so-called bile chromophores. The chromophores in certain biliproteins, including the phytochromes, isomerize reversibly from a stable Z-configuration to a stable E-configuration when irradiated with light of the appropriate wavelength ...

    Phycobiliproteins and phytochromes are light-harvesting and light-sensing proteins containing linear tetrapyrroles, so-called bile chromophores. The chromophores in certain biliproteins, including the phytochromes, isomerize reversibly from a stable Z-configuration to a stable E-configuration when irradiated with light of the appropriate wavelength. Here, we report the crystal structure of alpha-phycoerythrocyanin with its chromophore in the E-configuration, compare it with the Z-configuration found in trimeric phycoerythrocyanin, and reveal the structural bases of the isomerization. The geometric changes of the chromophore account for the large spectral shift, which characterizes the overall transition. Interactions of the chromophore A and D pyrrole rings with flexible protein moieties are required for the formation and stabilization of the isomers. We predict that the results will hold for all photoactive biliproteins.


    Organizational Affiliation

    Physikdepartment E17, Technische Universität München, James Franck Strasse, 85747 Garching, Germany. marius.schmidt@ph.tum.de



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PHYCOERYTHROCYANIN ALPHA CHAINA, B162Mastigocladus laminosusMutation(s): 0 
Gene Names: pccA
UniProt
Find proteins for P00309 (Mastigocladus laminosus)
Explore P00309 
Go to UniProtKB:  P00309
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PVN (Subject of Investigation/LOI)
Query on PVN

Download Ideal Coordinates CCD File 
C [auth A], D [auth B]PHYCOVIOLOBILIN
C33 H40 N4 O6
SYEAKBPGLNVPDH-HVONXEAXSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.309 
  • R-Value Work: 0.235 
  • R-Value Observed: 0.235 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 129.808α = 90
b = 102.598β = 94.48
c = 32.146γ = 90
Software Package:
Software NamePurpose
CNSrefinement
MOSFLMdata reduction
SCALAdata scaling
BEASTphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-01-23
    Type: Initial release
  • Version 1.1: 2012-07-25
    Changes: Non-polymer description, Other, Version format compliance
  • Version 1.2: 2019-05-08
    Changes: Data collection, Derived calculations, Experimental preparation, Other
  • Version 1.3: 2019-07-24
    Changes: Data collection