1IJD

Crystallographic Structure of the LH3 Complex from Rhodopseudomonas acidophila strain 7050


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.243 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The crystallographic structure of the B800-820 LH3 light-harvesting complex from the purple bacteria Rhodopseudomonas acidophila strain 7050.

McLuskey, K.Prince, S.M.Cogdell, R.J.Isaacs, N.W.

(2001) Biochemistry 40: 8783-8789


  • PubMed Abstract: 
  • The B800-820, or LH3, complex is a spectroscopic variant of the B800-850 LH2 peripheral light-harvesting complex. LH3 is synthesized by some species and strains of purple bacteria when growing under what are generally classed as "stressed" conditions ...

    The B800-820, or LH3, complex is a spectroscopic variant of the B800-850 LH2 peripheral light-harvesting complex. LH3 is synthesized by some species and strains of purple bacteria when growing under what are generally classed as "stressed" conditions, such as low intensity illumination and/or low temperature (<30 degrees C). The apoproteins in these complexes modify the absorption properties of the chromophores to ensure that the photosynthetic process is highly efficient. The crystal structure of the B800-820 light-harvesting complex, an integral membrane pigment-protein complex, from the purple bacteria Rhodopseudomonas (Rps.) acidophila strain 7050 has been determined to a resolution of 3.0 A by molecular replacement. The overall structure of the LH3 complex is analogous to that of the LH2 complex from Rps. acidophila strain 10050. LH3 has a nonameric quaternary structure where two concentric cylinders of alpha-helices enclose the pigment molecules bacteriochlorophyll a and carotenoid. The observed spectroscopic differences between LH2 and LH3 can be attributed to differences in the primary structure of the apoproteins. There are changes in hydrogen bonding patterns between the coupled Bchla molecules and the protein that have an effect on the conformation of the C3-acetyl groups of the B820 molecules. The structure of LH3 shows the important role that the protein plays in modulating the characteristics of the light-harvesting system and indicates the mechanisms by which the absorption properties of the complex are altered to produce a more efficient light-harvesting component.


    Related Citations: 
    • Crystallization and Preliminary X-ray Crystallographic Analysis of the B800-820 Light-harvesting Complex from Rhodopseudomonas acidophila Strain 7050
      McLuskey, K.,Prince, S.M.,Cogdell, R.J.,Isaacs, N.W.
      (1999) Acta Crystallogr.,Sect.D 55: 885


    Organizational Affiliation

    Department of Chemistry, Division of Biochemistry and Molecular Biology IBLS, University of Glasgow, Glasgow, Scotland G12 8QQ, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
LIGHT-HARVESTING PROTEIN B-800/820, ALPHA CHAIN
A, C, E
53Rhodoblastus acidophilusN/A
Find proteins for P35089 (Rhodoblastus acidophilus)
Go to UniProtKB:  P35089
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
LIGHT-HARVESTING PROTEIN B-800/820, BETA CHAIN
B, D, F
42Rhodoblastus acidophilusN/A
Find proteins for P35094 (Rhodoblastus acidophilus)
Go to UniProtKB:  P35094
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
RPA
Query on RPA

Download SDF File 
Download CCD File 
B, D, F
RHODOPINAL GLUCOSIDE
C46 H66 O7
KKQLCQBTEUVHBX-DSGXVNCLSA-N
 Ligand Interaction
BCL
Query on BCL

Download SDF File 
Download CCD File 
A, B, C, D, E, F
BACTERIOCHLOROPHYLL A
C55 H74 Mg N4 O6
DSJXIQQMORJERS-RUUWGSCADZ
 Ligand Interaction
BOG
Query on BOG

Download SDF File 
Download CCD File 
B, D, F
B-OCTYLGLUCOSIDE
C14 H28 O6
HEGSGKPQLMEBJL-RKQHYHRCSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
FME
Query on FME
A, C, E
L-PEPTIDE LINKINGC6 H11 N O3 SMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.243 
  • Space Group: H 3 2
Unit Cell:
Length (Å)Angle (°)
a = 117.260α = 90.00
b = 117.260β = 90.00
c = 295.920γ = 120.00
Software Package:
Software NamePurpose
CCP4data scaling
RESTRAINrefinement
AMoREphasing
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2001-10-17
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance