9HDB | pdb_00009hdb

Sla1 SH3_3 domain (residues 355-414)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.49 Å
  • R-Value Free: 
    0.190 (Depositor), 0.189 (DCC) 
  • R-Value Work: 
    0.143 (Depositor), 0.142 (DCC) 

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


This is version 1.1 of the entry. See complete history


Literature

Sla2 is a core interaction hub for clathrin light chain and the Pan1/End3/Sla1 complex.

Draper-Barr, G.Defelipe, L.A.Ruiz-Carrillo, D.Gustavsson, E.Landau, M.Garcia-Alai, M.

(2025) Structure 33: 1193

  • DOI: https://doi.org/10.1016/j.str.2025.04.013
  • Primary Citation of Related Structures:  
    9HDB, 9HDD

  • PubMed Abstract: 

    The interaction network of Sla2, a vital endocytic mid-coat adaptor protein, undergoes constant rearrangement. Sla2 serves as a scaffold linking the membrane to the actin cytoskeleton, with its role modulated by the clathrin light chain (CLC), which inhibits Sla2's function under certain conditions. We show that Sla2 has two independent binding sites for CLC: one previously described in homologs of fungi (Sla2) and metazoa (Hip1R), and a second found only in Fungi. We present the structural model of the Sla2 actin-binding domains in the context of regulatory structural domains by cryoelectron microscopy. We provide an interaction map of Sla2 and the regulatory proteins Sla1 and Pan1, predicted by AI modeling and confirmed by molecular biophysics techniques. Pan1 may compete with CLC for the conserved Sla2-binding site. These results enhance the mapping of crucial interactions at endocytic checkpoints and highlight the divergence between Metazoa and Fungi in this vital process.


  • Organizational Affiliation
    • European Molecular Biology Laboratory, DESY, Building 25a, Hamburg 22607, Germany; Centre for Structural Systems Biology (CSSB), DESY, Building 15, Hamburg 22607, Germany.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Actin cytoskeleton-regulatory complex protein SLA1A [auth B],
B [auth A]
64Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: SLA1YBL007CYBL0321
UniProt
Find proteins for P32790 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P32790 
Go to UniProtKB:  P32790
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP32790
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.49 Å
  • R-Value Free:  0.190 (Depositor), 0.189 (DCC) 
  • R-Value Work:  0.143 (Depositor), 0.142 (DCC) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 38.533α = 90
b = 50.423β = 90
c = 51.967γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
REFMACrefinement
Aimlessdata scaling
autoPROCdata reduction
PHENIXmodel building
Cootmodel building
MOLREPphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
EIPOD fellowship under Marie Sklodowska-Curie Actions COFUNDGermany664726

Revision History  (Full details and data files)

  • Version 1.0: 2025-05-21
    Type: Initial release
  • Version 1.1: 2025-07-16
    Changes: Database references