7XSD

Cryo-EM structure of RuBisCO assembly intermediate RbcL8Raf18RbcX16


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural insights into cyanobacterial RuBisCO assembly coordinated by two chaperones Raf1 and RbcX.

Li, Q.Jiang, Y.L.Xia, L.Y.Chen, Y.Zhou, C.Z.

(2022) Cell Discov 8: 93-93

  • DOI: https://doi.org/10.1038/s41421-022-00436-9
  • Primary Citation of Related Structures:  
    7XSD

  • PubMed Abstract: 

    RuBisCO is the most abundant enzyme in nature, catalyzing the fixation of CO 2 in photosynthesis. Its common form consists of eight RbcL and eight RbcS subunits, the assembly of which requires a series of chaperones that include RbcX and RuBisCO accumulation factor 1 (Raf1). To understand how these RuBisCO-specific chaperones function during cyanobacterial RbcL 8 RbcS 8 (L 8 S 8 ) holoenzyme formation, we solved a 3.3-Å cryo-electron microscopy structure of a 32-subunit RbcL 8 Raf1 8 RbcX 16 (L 8 F 8 X 16 ) assembly intermediate from Anabaena sp. PCC 7120. Comparison to the previously resolved L 8 F 8 and L 8 X 16 structures together with biochemical assays revealed that the L 8 F 8 X 16 complex forms a rather dynamic structural intermediate, favoring RbcS displacement of Raf1 and RbcX. In vitro assays further demonstrated that both Raf1 and RbcX function to regulate RuBisCO condensate formation by restricting CcmM35 binding to the stably assembled L 8 S 8 holoenzymes. Combined with previous findings, we propose a model on how Raf1 and RbcX work in concert to facilitate, and regulate, cyanobacterial RuBisCO assembly as well as disassembly of RuBisCO condensates.


  • Organizational Affiliation

    School of Life Sciences, University of Science and Technology of China, Hefei, Anhui, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
RuBisCO chaperone RbcX132Nostoc sp. PCC 7120 = FACHB-418Mutation(s): 0 
Gene Names: rbcXalr1525
UniProt
Find proteins for O86418 (Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576))
Explore O86418 
Go to UniProtKB:  O86418
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO86418
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
RuBisCO accumulation factor 1361Nostoc sp. PCC 7120 = FACHB-418Mutation(s): 0 
Gene Names: all5250
UniProt
Find proteins for Q8YLP6 (Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576))
Explore Q8YLP6 
Go to UniProtKB:  Q8YLP6
Entity Groups  
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UniProt GroupQ8YLP6
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Ribulose bisphosphate carboxylase large chain476Nostoc sp. PCC 7120 = FACHB-418Mutation(s): 0 
Gene Names: cbbLrbcrbcArbcLalr1524
EC: 4.1.1.39
UniProt
Find proteins for P00879 (Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576))
Explore P00879 
Go to UniProtKB:  P00879
Entity Groups  
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UniProt GroupP00879
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Chinese Academy of SciencesChinaXDA24020302 and XDB37020301
National Natural Science Foundation of China (NSFC)China32171198
Ministry of Science and Technology (MoST, China)China2016YFA0400900

Revision History  (Full details and data files)

  • Version 1.0: 2022-07-06
    Type: Initial release
  • Version 1.1: 2022-10-05
    Changes: Database references
  • Version 1.2: 2024-07-03
    Changes: Data collection