12ZN | pdb_000012zn

Septin tetrameric complex from Caenorhabditis elegans by Cryo-EM


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.65 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history

Literature

Cryo-EM Structure of the C. Elegans Septin Tetramer Reveals a Revised Architecture and Conserved Positional Orthology.

Saladino, G.C.D.R.Ciol, H.Mendonca, D.C.Furtado, A.A.Pereira, H.D.Klaholz, B.P.Ulian Araujo, A.P.Garratt, R.C.

(2026) J Mol Biol 438: 169915-169915

  • DOI: https://doi.org/10.1016/j.jmb.2026.169915
  • Primary Citation Related Structures: 
    12ZN

  • PubMed Abstract: 

    Septins are cytoskeletal proteins that assemble into hetero-oligomeric complexes, which polymerize into filaments to regulate many cellular processes, including cytokinesis and membrane remodeling. In Caenorhabditis elegans, the core septin complex is a tetramer composed of two copies each of two different subunits, UNC-59 and UNC-61. Historically, low-resolution models suggested a subunit order of UNC-59-UNC-61-UNC-61-UNC-59 for the tetramer. However, this arrangement contradicted the positional conservation of septins observed in other species. Using cryo-EM, we obtained a structure for the tetramer with a global resolution of 2.7 Å, definitively establishing the subunit order to be UNC-61-UNC-59-UNC-59-UNC-61. This places UNC-59 at the center of the particle where it forms a homodimeric G-interface, confirming it to be a positional ortholog of human SEPT7. This arrangement is further supported by mutational/biophysical analyses. Despite the stability of the tetramer, the complex failed to polymerize into filaments in vitro, which we attribute to the structural instability of the terminal UNC-61 G-interfaces. Our results suggest that post-translational modifications or specific cellular factors may be required to initiate higher-order assembly in C. elegans. Furthermore, our structure reveals that while UNC-59 possesses key characteristics of the SEPT7 group, it also features unique structural adaptations that may be related to the unique arrangement of the C. elegans complex. We demonstrate that the previous misidentification of the subunit order within the tetramer likely stemmed from N-terminal domain swapping, reinforcing the importance of high-resolution structural studies for understanding the evolutionary history and the diversity of septins.


  • Organizational Affiliation
    • Sao Carlos Institute of Physics, University of Sao Paulo, IFSC - USP, Avenida Joao Dagnone, 1100, 13566-590 Sao Carlos, SP, Brazil.

Macromolecule Content 

  • Total Structure Weight: 217.76 kDa 
  • Atom Count: 7,115 
  • Modeled Residue Count: 863 
  • Deposited Residue Count: 1,880 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Septin
A, D
462Caenorhabditis elegansMutation(s): 0 
Gene Names: unc-61CELE_Y50E8A.4Y50E8A.4
UniProt
Find proteins for Q9U277 (Caenorhabditis elegans)
Explore Q9U277 
Go to UniProtKB:  Q9U277
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9U277
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Septin
B, C
478Caenorhabditis elegansMutation(s): 0 
Gene Names: unc-59CELE_W09C5.2W09C5.2
UniProt
Find proteins for Q9U334 (Caenorhabditis elegans)
Explore Q9U334 
Go to UniProtKB:  Q9U334
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9U334
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.65 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC4.7.0
MODEL REFINEMENTPHENIX1.20.1_4487

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Sao Paulo Research Foundation (FAPESP)Brazil20/02897-1

Revision History  (Full details and data files)

  • Version 1.0: 2026-09-09
    Type: Initial release