3EOJ

Fmo protein from Prosthecochloris Aestuarii 2K AT 1.3A Resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.3 Å
  • R-Value Free: 0.161 
  • R-Value Work: 0.135 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The structural basis for the difference in absorbance spectra for the FMO antenna protein from various green sulfur bacteria.

Tronrud, D.E.Wen, J.Gay, L.Blankenship, R.E.

(2009) Photosynth.Res. 100: 79-87

  • DOI: 10.1007/s11120-009-9430-6
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The absorbance spectrum of the Fenna-Matthews-Olson protein--a component of the antenna system of Green Sulfur Bacteria--is always one of two types, depending on the species of the source organism. The FMO from Prosthecochloris aestuarii 2K has a spe ...

    The absorbance spectrum of the Fenna-Matthews-Olson protein--a component of the antenna system of Green Sulfur Bacteria--is always one of two types, depending on the species of the source organism. The FMO from Prosthecochloris aestuarii 2K has a spectrum of type 1 while that from Chlorobaculum tepidum is of type 2. The previously reported crystal structures for these two proteins did not disclose any rationale that would explain their spectral differences. We have collected a 1.3 A X-ray diffraction dataset of the FMO from Prosthecochloris aestuarii 2K, which has allowed us to identify an additional Bacteriochlorophyll-a molecule with chemical attachments to both sides of the central magnesium atom. A new analysis of the previously published X-ray data for the Chlorobaculum tepidum FMO shows the presence of a Bacteriochlorophyll-a molecule in an equivalent location but with a chemical attachment from only one side. This difference in binding is shown to be predictive of the spectral type of the FMO.


    Related Citations: 
    • Lipid-Protein Interactions in a Bacteriochlorophyll-Containing Protein
      Matthews, B.W.
      (1982) Lipid-Protein Interactions 1: 1
    • Structure and X-Ray Amino Acid Sequence of a Bacteriochlorophyll a Protein from Prosthecochloris Aestuarii Refined at 1.9 A Resolution
      Tronrud, D.E.,Schmid, M.F.,Matthews, B.W.
      (1986) J.Mol.Biol. 188: 443
    • Bacteriochlorophyll A-Protein from Green Bacteria
      Olson, J.M.
      (1978) The Photosynthetic Bacteria --: 161
    • Structural Studies of a Bacteriochlorophyll-Containing Protein
      Schmid, M.F.,Tronrud, D.E.,Matthews, B.W.
      (1983) Chem.Scr. 21: 69
    • Structure of a Bacteriochlorophyll A-Protein from Prosthecochloris Aestuarii
      Fenna, R.E.,Matthews, B.W.
      (1976) Brookhaven Symp.Biol. 28: 170
    • Chlorophyll Arrangement in a Bacteriochlorophyll Protein from Chlorobium Limicola
      Fenna, R.E.,Matthews, B.W.
      (1975) Nature 258: 573
    • Refinement of the Structure of a Water-Soluble Antenna Complex from Green Photosynthetic Bacteria by Incorporation of the Chemically Determined Amino Acid Sequence
      Tronrud, D.E.,Matthews, B.W.
      (1993) The Photosynthetic Reaction Center 1: 13
    • Structure of a Green Bacteriochlorophyll Protein
      Matthews, B.W.,Fenna, R.E.
      (1980) Acc.Chem.Res. 13: 309
    • Structure of a Bacteriochlorophyll A-Protein from the Green Photosynthetic Bacterium Prosthecochloris Aestuarii
      Matthews, B.W.,Fenna, R.E.,Bolognesi, M.C.,Schmid, M.F.,Olson, J.M.
      (1979) J.Mol.Biol. 131: 259
    • Atomic Coordinates for the Chlorophyll Core of a Bacteriochlorophyll A-Protein from Green Photosynthetic Bacteria
      Fenna, R.E.,Ten Eyck, L.F.,Matthews, B.W.
      (1977) Biochem.Biophys.Res.Commun. 75: 751
    • An Evaluation of Electron Micrographs of Bacteriochlorophyll A-Protein Crystals in Terms of the Structure Determined by X-Ray Crystallography
      Matthews, B.W.,Fenna, R.E.,Remington, S.J.
      (1977) J.Ultrastruct.Res. 58: 316


    Organizational Affiliation

    Howard Hughes Medical Institute, Institute of Molecular Biology, University of Oregon, Eugene, OR 97403, USA. det101@daletronrud.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Bacteriochlorophyll a protein
A
366Prosthecochloris aestuariiMutation(s): 0 
Find proteins for P11741 (Prosthecochloris aestuarii)
Go to UniProtKB:  P11741
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
A
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
BCL
Query on BCL

Download SDF File 
Download CCD File 
A
BACTERIOCHLOROPHYLL A
C55 H74 Mg N4 O6
DSJXIQQMORJERS-RUUWGSCADZ
 Ligand Interaction
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
NH4
Query on NH4

Download SDF File 
Download CCD File 
A
AMMONIUM ION
H4 N
QGZKDVFQNNGYKY-UHFFFAOYSA-O
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.3 Å
  • R-Value Free: 0.161 
  • R-Value Work: 0.135 
  • Space Group: P 63
Unit Cell:
Length (Å)Angle (°)
a = 111.242α = 90.00
b = 111.242β = 90.00
c = 98.198γ = 120.00
Software Package:
Software NamePurpose
ARP/wARPmodel building
SHELXL-97refinement
HKL-2000data reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-05-12
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2013-12-18
    Type: Other