2X5V

80 microsecond laue diffraction snapshot from crystals of a photosynthetic reaction centre 3 millisecond following photoactivation.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.319 
  • R-Value Work: 0.277 
  • R-Value Observed: 0.279 

wwPDB Validation 3D Report Full Report



Literature

Light-Induced Structural Changes in a Photosynthetic Reaction Center Caught by Laue Diffraction.

Wohri, A.B.Katona, G.Johansson, L.C.Fritz, E.Malmerberg, E.Andersson, M.Vincent, J.Eklund, M.Cammarata, M.Wulff, M.Davidsson, J.Groenhof, G.Neutze, R.

(2010) Science 328: 630

  • DOI: 10.1126/science.1186159
  • Primary Citation of Related Structures:  
    2X5U, 2X5V

  • PubMed Abstract: 
  • Photosynthetic reaction centers convert the energy content of light into a transmembrane potential difference and so provide the major pathway for energy input into the biosphere. We applied time-resolved Laue diffraction to study light-induced confo ...

    Photosynthetic reaction centers convert the energy content of light into a transmembrane potential difference and so provide the major pathway for energy input into the biosphere. We applied time-resolved Laue diffraction to study light-induced conformational changes in the photosynthetic reaction center complex of Blastochloris viridis. The side chain of TyrL162, which lies adjacent to the special pair of bacteriochlorophyll molecules that are photooxidized in the primary light conversion event of photosynthesis, was observed to move 1.3 angstroms closer to the special pair after photoactivation. Free energy calculations suggest that this movement results from the deprotonation of this conserved tyrosine residue and provides a mechanism for stabilizing the primary charge separation reactions of photosynthesis.


    Organizational Affiliation

    Department of Chemical and Biological Engineering, Chalmers University of Technology, Box 462, SE-40530 Göteborg, Sweden.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PHOTOSYNTHETIC REACTION CENTER CYTOCHROME C SUBUNITC336Blastochloris viridisMutation(s): 0 
Gene Names: pufCcytCBVIRIDIS_00500
Find proteins for P07173 (Blastochloris viridis)
Explore P07173 
Go to UniProtKB:  P07173
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
REACTION CENTER PROTEIN H CHAINH258Blastochloris viridisMutation(s): 0 
Gene Names: puhA
Find proteins for P06008 (Blastochloris viridis)
Explore P06008 
Go to UniProtKB:  P06008
Protein Feature View
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
REACTION CENTER PROTEIN M CHAINM324Blastochloris viridisMutation(s): 0 
Gene Names: pufM
Find proteins for P06010 (Blastochloris viridis)
Explore P06010 
Go to UniProtKB:  P06010
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
REACTION CENTER PROTEIN L CHAINL274Blastochloris viridisMutation(s): 0 
Gene Names: pufL
Find proteins for P06009 (Blastochloris viridis)
Explore P06009 
Go to UniProtKB:  P06009
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BCB
Query on BCB

Download CCD File 
L, M
BACTERIOCHLOROPHYLL B
C55 H72 Mg N4 O6
QNWPCDKNPGOYNP-LQPBATPMDK
 Ligand Interaction
BPB
Query on BPB

Download CCD File 
L, M
BACTERIOPHEOPHYTIN B
C55 H74 N4 O6
SFKCKJXMIAKQMY-GTTFDWDMSA-N
 Ligand Interaction
MQ7
Query on MQ7

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M
MENAQUINONE-7
C46 H64 O2
RAKQPZMEYJZGPI-LJWNYQGCSA-N
 Ligand Interaction
HEC
Query on HEC

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C
HEME C
C34 H34 Fe N4 O4
HXQIYSLZKNYNMH-LJNAALQVSA-N
 Ligand Interaction
FE2
Query on FE2

Download CCD File 
M
FE (II) ION
Fe
CWYNVVGOOAEACU-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
FME
Query on FME
HL-PEPTIDE LINKINGC6 H11 N O3 SMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.319 
  • R-Value Work: 0.277 
  • R-Value Observed: 0.279 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 85.693α = 90
b = 143.47β = 90
c = 177.998γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
Precognitiondata reduction
Epinormdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-05-12
    Type: Initial release
  • Version 1.1: 2012-02-01
    Changes: Non-polymer description, Version format compliance
  • Version 1.2: 2017-01-25
    Changes: Data collection
  • Version 1.3: 2019-05-22
    Changes: Advisory, Data collection, Derived calculations, Experimental preparation
  • Version 2.0: 2019-09-25
    Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Other, Structure summary