8P4X

FAD_ox bound dark state structure of PdLCry


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.57 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

A marine cryptochrome with an inverse photo-oligomerization mechanism.

Vu, H.H.Behrmann, H.Hanic, M.Jeyasankar, G.Krishnan, S.Dannecker, D.Hammer, C.Gunkel, M.Solov'yov, I.A.Wolf, E.Behrmann, E.

(2023) Nat Commun 14: 6918-6918

  • DOI: https://doi.org/10.1038/s41467-023-42708-2
  • Primary Citation of Related Structures:  
    8P4X

  • PubMed Abstract: 

    Cryptochromes (CRYs) are a structurally conserved but functionally diverse family of proteins that can confer unique sensory properties to organisms. In the marine bristle worm Platynereis dumerilii, its light receptive cryptochrome L-CRY (PdLCry) allows the animal to discriminate between sunlight and moonlight, an important requirement for synchronizing its lunar cycle-dependent mass spawning. Using cryo-electron microscopy, we show that in the dark, PdLCry adopts a dimer arrangement observed neither in plant nor insect CRYs. Intense illumination disassembles the dimer into monomers. Structural and functional data suggest a mechanistic coupling between the light-sensing flavin adenine dinucleotide chromophore, the dimer interface, and the C-terminal tail helix, with a likely involvement of the phosphate binding loop. Taken together, our work establishes PdLCry as a CRY protein with inverse photo-oligomerization with respect to plant CRYs, and provides molecular insights into how this protein might help discriminating the different light intensities associated with sunlight and moonlight.


  • Organizational Affiliation

    Institute of Molecular Physiology (IMP), Johannes Gutenberg-University Mainz, Hanns-Dieter-Hüsch-Weg 17, 55128, Mainz, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Putative light-receptive cryptochrome (Fragment)
A, B
565Platynereis dumeriliiMutation(s): 0 
UniProt
Find proteins for G8Z9G7 (Platynereis dumerilii)
Explore G8Z9G7 
Go to UniProtKB:  G8Z9G7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG8Z9G7
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.57 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC
MODEL REFINEMENTPHENIX1.20.1_4487:

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research Foundation (DFG)GermanyINST 216/949-1 FUGG
German Research Foundation (DFG)GermanyINST 216/512/1 FUGG
German Research Foundation (DFG)GermanySFB1372
German Research Foundation (DFG)GermanyGRK1885

Revision History  (Full details and data files)

  • Version 1.0: 2023-11-08
    Type: Initial release
  • Version 1.1: 2024-03-27
    Changes: Database references