3EOJ

Fmo protein from Prosthecochloris Aestuarii 2K AT 1.3A Resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.30 Å
  • R-Value Free: 0.161 
  • R-Value Work: 0.135 
  • R-Value Observed: 0.137 

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Ligand Structure Quality Assessment 


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:  
    3ENI, 3EOJ

  • 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 spectrum of type 1 while that from Chlorobaculum tepidum is of type 2 ...

    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: 
    • 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 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
    • Structural Studies of a Bacteriochlorophyll-Containing Protein
      Schmid, M.F., Tronrud, D.E., Matthews, B.W.
      (1983) Chem Scr 21: 69
    • Lipid-Protein Interactions in a Bacteriochlorophyll-Containing Protein
      Matthews, B.W.
      (1982) Lipid-protein Interactions 1: 1
    • 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
    • Bacteriochlorophyll A-Protein from Green Bacteria
      Olson, J.M.
      (1978) The Photosynthetic Bacteria --: 161
    • 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
    • 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

    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:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Bacteriochlorophyll a proteinA366Prosthecochloris aestuariiMutation(s): 0 
UniProt
Find proteins for P11741 (Prosthecochloris aestuarii)
Explore P11741 
Go to UniProtKB:  P11741
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BCL (Subject of Investigation/LOI)
Query on BCL

Download Ideal Coordinates CCD File 
B [auth A], C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A]BACTERIOCHLOROPHYLL A
C55 H74 Mg N4 O6
DSJXIQQMORJERS-RUUWGSCADZ
 Ligand Interaction
EDO
Query on EDO

Download Ideal Coordinates CCD File 
J [auth A] , K [auth A] , L [auth A] , M [auth A] , N [auth A] , O [auth A] , P [auth A] , Q [auth A] , 
J [auth A],  K [auth A],  L [auth A],  M [auth A],  N [auth A],  O [auth A],  P [auth A],  Q [auth A],  R [auth A],  S [auth A],  T [auth A],  U [auth A],  V [auth A],  W [auth A],  X [auth A]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
NA
Query on NA

Download Ideal Coordinates CCD File 
Y [auth A]SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
NH4
Query on NH4

Download Ideal Coordinates CCD File 
Z [auth A]AMMONIUM ION
H4 N
QGZKDVFQNNGYKY-UHFFFAOYSA-O
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.30 Å
  • R-Value Free: 0.161 
  • R-Value Work: 0.135 
  • R-Value Observed: 0.137 
  • Space Group: P 63
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 111.242α = 90
b = 111.242β = 90
c = 98.198γ = 120
Software Package:
Software NamePurpose
ARP/wARPmodel building
SHELXL-97refinement
HKL-2000data reduction
SCALEPACKdata scaling

Structure Validation

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Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

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