8Q05 | pdb_00008q05

Chlorella sorokiniana Rubisco with CsLinker (alpha3-alpha4) bound: D4 symmetry expanded


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.77 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

A promiscuous mechanism to phase separate eukaryotic carbon fixation in the green lineage.

Barrett, J.Naduthodi, M.I.S.Mao, Y.Degut, C.Musial, S.Salter, A.Leake, M.C.Plevin, M.J.McCormick, A.J.Blaza, J.N.Mackinder, L.C.M.

(2024) Nat Plants 10: 1801-1813

  • DOI: https://doi.org/10.1038/s41477-024-01812-x
  • Primary Citation of Related Structures:  
    8Q04, 8Q05

  • PubMed Abstract: 

    CO 2 fixation is commonly limited by inefficiency of the CO 2 -fixing enzyme Rubisco. Eukaryotic algae concentrate and fix CO 2 in phase-separated condensates called pyrenoids, which complete up to one-third of global CO 2 fixation. Condensation of Rubisco in pyrenoids is dependent on interaction with disordered linker proteins that show little conservation between species. We developed a sequence-independent bioinformatic pipeline to identify linker proteins in green algae. We report the linker from Chlorella and demonstrate that it binds a conserved site on the Rubisco large subunit. We show that the Chlorella linker phase separates Chlamydomonas Rubisco and that despite their separation by ~800 million years of evolution, the Chlorella linker can support the formation of a functional pyrenoid in Chlamydomonas. This cross-species reactivity extends to plants, with the Chlorella linker able to drive condensation of some native plant Rubiscos in vitro and in planta. Our results represent an exciting frontier for pyrenoid engineering in plants, which is modelled to increase crop yields.


  • Organizational Affiliation
    • Department of Biology, University of York, York, UK.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
CsLinker (alpha3-alpha4)A [auth Z]138Chlorella sorokinianaMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Ribulose bisphosphate carboxylase large chain475Chlorella sorokinianaMutation(s): 0 
EC: 4.1.1.39
UniProt
Find proteins for W8SUA8 (Chlorella sorokiniana)
Explore W8SUA8 
Go to UniProtKB:  W8SUA8
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UniProt GroupW8SUA8
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Ribulose bisphosphate carboxylase small subunit, chloroplastic183Chlorella sorokinianaMutation(s): 0 
UniProt
Find proteins for A0A2P6U2H5 (Chlorella sorokiniana)
Explore A0A2P6U2H5 
Go to UniProtKB:  A0A2P6U2H5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A2P6U2H5
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.77 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.1

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Engineering and Physical Sciences Research CouncilUnited KingdomEP/W024063/1
Future Leader FellowshipUnited KingdomMR/T020679/1
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/S015337/1
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/S015337/1
Future Leader FellowshipUnited KingdomMR/T040742/1

Revision History  (Full details and data files)

  • Version 1.0: 2024-08-07
    Type: Initial release
  • Version 1.1: 2024-10-30
    Changes: Data collection, Database references, Structure summary
  • Version 1.2: 2024-11-27
    Changes: Data collection, Database references