3RG6

Crystal structure of a chaperone-bound assembly intermediate of form I Rubisco


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.216 
  • R-Value Observed: 0.217 

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This is version 1.5 of the entry. See complete history


Literature

Crystal structure of a chaperone-bound assembly intermediate of form I Rubisco.

Bracher, A.Starling-Windhof, A.Hartl, F.U.Hayer-Hartl, M.

(2011) Nat Struct Mol Biol 18: 875-880

  • DOI: 10.1038/nsmb.2090
  • Primary Citation of Related Structures:  
    3RG6

  • PubMed Abstract: 
  • The form I Rubisco of autotrophic bacteria, algae and plants is a complex of eight large (RbcL) and eight small (RbcS) subunits. It fixes atmospheric CO(2) in the dark reaction of photosynthesis. As shown for the cyanobacterial enzyme, folding of the RbcL subunits is mediated by the GroEL-GroES chaperonin system, and assembly requires the specialized chaperone RbcX, a homodimer of ~15-kDa subunits ...

    The form I Rubisco of autotrophic bacteria, algae and plants is a complex of eight large (RbcL) and eight small (RbcS) subunits. It fixes atmospheric CO(2) in the dark reaction of photosynthesis. As shown for the cyanobacterial enzyme, folding of the RbcL subunits is mediated by the GroEL-GroES chaperonin system, and assembly requires the specialized chaperone RbcX, a homodimer of ~15-kDa subunits. Here we present the 3.2-Å crystal structure of a Rubisco assembly intermediate, consisting of the RbcL(8) core with eight RbcX(2) molecules bound. The structure reveals the molecular mechanism by which RbcX(2) mediates oligomeric assembly. Specifically, RbcX(2) provides positional information for proper formation of antiparallel RbcL dimers, thereby preventing RbcL-RbcL misalignment and off-pathway aggregation. The RbcL(8)(RbcX(2))(8) structure also suggests that RbcS functions by stabilizing the '60s loop' of RbcL in the catalytically active conformation.


    Related Citations: 
    • Coupled chaperone action in folding and assembly of hexadecameric Rubisco.
      Liu, C., Young, A.L., Starling-Windhof, A., Bracher, A., Saschenbrecker, S., Rao, B.V., Rao, K.V., Berninghausen, O., Mielke, T., Hartl, F.U., Beckmann, R., Hayer-Hartl, M.
      (2010) Nature 463: 197
    • Structure and function of RbcX, an assembly chaperone for hexadecameric Rubisco.
      Saschenbrecker, S., Bracher, A., Rao, K.V., Rao, B.V., Hartl, F.U., Hayer-Hartl, M.
      (2007) Cell 129: 1189
    • Structure determination and refinement of ribulose 1,5-bisphosphate carboxylase/oxygenase from Synechococcus PCC6301.
      Newman, J., Branden, C.I., Jones, T.A.
      (1993) Acta Crystallogr D Biol Crystallogr 49: 548

    Organizational Affiliation

    Department of Cellular Biochemistry, Max Planck Institute of Biochemistry, Martinsried, Germany. bracher@biochem.mpg.de



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Ribulose bisphosphate carboxylase large chainA, D [auth B]472Synechococcus elongatus PCC 6301Mutation(s): 0 
Gene Names: cbbLrbcArbcLsyc0130_c
EC: 4.1.1.39
UniProt
Find proteins for P00880 (Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1))
Explore P00880 
Go to UniProtKB:  P00880
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
RbcX proteinB [auth C], C [auth D], E, F155Anabaena sp.Mutation(s): 0 
Gene Names: rbcX
UniProt
Find proteins for Q44212 (Anabaena sp. (strain CA / ATCC 33047))
Explore Q44212 
Go to UniProtKB:  Q44212
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.216 
  • R-Value Observed: 0.217 
  • Space Group: I 4
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 244.75α = 90
b = 244.75β = 90
c = 99.669γ = 90
Software Package:
Software NamePurpose
SCALAdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
ADSCdata collection
XSCALEdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-07-20
    Type: Initial release
  • Version 1.1: 2011-08-03
    Changes: Database references
  • Version 1.2: 2011-08-17
    Changes: Database references
  • Version 1.3: 2014-07-16
    Changes: Other
  • Version 1.4: 2017-10-25
    Changes: Author supporting evidence
  • Version 1.5: 2019-11-20
    Changes: Database references