8AFE

Cryo-EM structure of crescentin filaments (stutter mutant, C1 symmetry and small box)


Experimental Data Snapshot

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

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Filament structure and subcellular organization of the bacterial intermediate filament-like protein crescentin.

Liu, Y.van den Ent, F.Lowe, J.

(2024) Proc Natl Acad Sci U S A 121: e2309984121-e2309984121

  • DOI: https://doi.org/10.1073/pnas.2309984121
  • Primary Citation of Related Structures:  
    8AFE, 8AFH, 8AFL, 8AFM, 8AHL, 8AIA, 8AIX, 8AJB

  • PubMed Abstract: 

    The protein crescentin is required for the crescent shape of the freshwater bacterium Caulobacter crescentus ( vibrioides ). Crescentin forms a filamentous structure on the inner, concave side of the curved cells. It shares features with eukaryotic intermediate filament (IF) proteins, including the formation of static filaments based on long and parallel coiled coils, the protein's length, structural roles in cell and organelle shape determination and the presence of a coiled coil discontinuity called the "stutter." Here, we have used electron cryomicroscopy (cryo-EM) to determine the structure of the full-length protein and its filament, exploiting a crescentin-specific nanobody. The filament is formed by two strands, related by twofold symmetry, that each consist of two dimers, resulting in an octameric assembly. Crescentin subunits form longitudinal contacts head-to-head and tail-to-tail, making the entire filament non-polar. Using in vivo site-directed cysteine cross-linking, we demonstrated that contacts observed in the in vitro filament structure exist in cells. Electron cryotomography (cryo-ET) of cells expressing crescentin showed filaments on the concave side of the curved cells, close to the inner membrane, where they form a band. When comparing with current models of IF proteins and their filaments, which are also built from parallel coiled coil dimers and lack overall polarity, it emerges that IF proteins form head-to-tail longitudinal contacts in contrast to crescentin and hence several inter-dimer contacts in IFs have no equivalents in crescentin filaments. Our work supports the idea that intermediate filament-like proteins achieve their shared polymerization and mechanical properties through a variety of filament architectures.


  • Organizational Affiliation

    Medical Research Council Laboratory of Molecular Biology, Structural Studies Division, Cambridge Biomedical Campus, Cambridge CB2 0QH, United Kingdom.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Crescentin
A, B, E, F, G
A, B, E, F, G, H
460Caulobacter vibrioidesMutation(s): 0 
Gene Names: creSKZH45_19550
UniProt
Find proteins for A0A0H3CD98 (Caulobacter vibrioides (strain NA1000 / CB15N))
Explore A0A0H3CD98 
Go to UniProtKB:  A0A0H3CD98
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0H3CD98
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Crescentin-specific megabody MB13C [auth D],
D [auth C],
I,
J
907CamelidaeMutation(s): 0 
EC: 3.2.1
UniProt
Find proteins for P42592 (Escherichia coli (strain K12))
Explore P42592 
Go to UniProtKB:  P42592
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP42592
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC
MODEL REFINEMENTPHENIX

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom202754/Z/16/Z

Revision History  (Full details and data files)

  • Version 1.0: 2023-08-16
    Type: Initial release
  • Version 1.1: 2024-02-21
    Changes: Database references
  • Version 1.2: 2024-11-13
    Changes: Data collection, Structure summary