4F0T

X-Ray Crystal Structure of Phycocyanin from Synechocystis sp. PCC 6803


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.216 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Allophycocyanin and phycocyanin crystal structures reveal facets of phycobilisome assembly.

Marx, A.Adir, N.

(2013) Biochim.Biophys.Acta 1827: 311-318

  • DOI: 10.1016/j.bbabio.2012.11.006
  • Primary Citation of Related Structures:  4F0U, 4GXE, 4GY3, 4H0M

  • PubMed Abstract: 
  • X-ray crystal structures of the isolated phycobiliprotein components of the phycobilisome have provided high resolution details to the description of this light harvesting complex at different levels of complexity and detail. The linker-independent a ...

    X-ray crystal structures of the isolated phycobiliprotein components of the phycobilisome have provided high resolution details to the description of this light harvesting complex at different levels of complexity and detail. The linker-independent assembly of trimers into hexamers in crystal lattices of previously determined structures has been observed in almost all of the phycocyanin (PC) and allophycocyanin (APC) structures available in the Protein Data Bank. In this paper we describe the X-ray crystal structures of PC and APC from Synechococcus elongatus sp. PCC 7942, PC from Synechocystis sp. PCC 6803 and PC from Thermosynechococcus vulcanus crystallized in the presence of urea. All five structures are highly similar to other PC and APC structures on the levels of subunits, monomers and trimers. The Synechococcus APC forms a unique loose hexamer that may show the structural requirements for core assembly and rod attachment. While the Synechococcus PC assembles into the canonical hexamer, it does not further assemble into rods. Unlike most PC structures, the Synechocystis PC fails to form hexamers. Addition of low concentrations of urea to T. vulcanus PC inhibits this proteins propensity to form hexamers, resulting in a crystal lattice composed of trimers. The molecular source of these differences in assembly and their relevance to the phycobilisome structure is discussed.


    Organizational Affiliation

    Schulich Faculty of Chemistry, Technion-Israel Institute of Technology, Haifa, Israel.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
C-phycocyanin alpha chain
A
162Synechocystis sp. (strain PCC 6803 / Kazusa)Gene Names: cpcA
Find proteins for Q54715 (Synechocystis sp. (strain PCC 6803 / Kazusa))
Go to UniProtKB:  Q54715
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
C-phycocyanin beta chain
B
172Synechocystis sp. (strain PCC 6803 / Kazusa)Gene Names: cpcB
Find proteins for Q54714 (Synechocystis sp. (strain PCC 6803 / Kazusa))
Go to UniProtKB:  Q54714
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CYC
Query on CYC

Download SDF File 
Download CCD File 
A, B
PHYCOCYANOBILIN
C33 H40 N4 O6
VXTXPYZGDQPMHK-GMXXPEQVSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MEN
Query on MEN
B
L-PEPTIDE LINKINGC5 H10 N2 O3ASN
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.216 
  • Space Group: P 63
Unit Cell:
Length (Å)Angle (°)
a = 153.020α = 90.00
b = 153.020β = 90.00
c = 40.060γ = 120.00
Software Package:
Software NamePurpose
SCALAdata scaling
CNSrefinement
PHASERphasing
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2012-05-05 
  • Released Date: 2013-03-06 
  • Deposition Author(s): Marx, A., Adir, N.

Revision History 

  • Version 1.0: 2013-03-06
    Type: Initial release