Skip to main content

 31DL | pdb_000031dl

Apo form of calmodulin-like domain of human alpha-actinin-4


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 20 
  • Conformers Submitted: 20 
  • Selection Criteria: all calculated structures submitted 

wwPDB Validation 3D Report Full Report

Validation slider image for 31DL

This is version 1.1 of the entry. See complete history. 

Literature

Distinct Ca 2+ -binding thermodynamics reveal a paralogue-specific structural response in the calmodulin-like domain of alpha-actinin-4.

Hocevar, J., Kovacic, M., Plavec, J., Djinovic-Carugo, K., Pavsic, M.

(2026) Int J Biol Macromol 384: 154866-154866

  • DOI: https://doi.org/10.1016/j.ijbiomac.2026.154866
  • Primary Citation Related Structures: 
    31DL, 31DM

  • PubMed Abstract: 

    The actin cytoskeleton, a complex and dynamic network, is precisely organized into structurally and functionally diverse assemblies by actin-binding proteins. A major group of actin crosslinking proteins are α-actinins. The non-muscle forms, α-actinin-1 and -4, are ubiquitous proteins whose actin crosslinking activity is regulated by Ca 2+ ions. The molecular mechanism of regulation is unknown, but it has been suggested to be driven by structural changes triggered by the binding of Ca 2+ ions to their calmodulin-like domain (CaMD). While the structure and Ca 2+ -binding properties of human α-actinin-1 CaMD have already been investigated, no such data were available for the α-actinin-4 CaMD. To address this, we used structurally informed mutagenesis and isothermal titration calorimetry (ITC) to confirm a homologous single Ca 2+ -binding site in the N-terminal lobe of the α-actinin-4 CaMD. In stark contrast to the α-actinin-1 CaMD, where binding is endothermic, binding to the α-actinin-4 CaMD is exothermic and displays a 6-fold lower affinity towards Ca 2+ . These distinct thermodynamic signatures suggest a paralogue-specific conformational change. Indeed, protein NMR spectroscopy revealed a unique Ca 2+ -induced conformational change of the C-terminal lobe, providing new insights into the molecular mechanisms that modulate α-actinin-mediated actin crosslinking.


  • Organizational Affiliation: 
    • Department of Biochemistry, Faculty of Chemistry and Chemical technology, University of Ljubljana, Ljubljana, Slovenia.

Macromolecule Content 

  • Total Structure Weight: 16.99 kDa 
  • Atom Count: 1,194 
  • Modeled Residue Count: 153 
  • Deposited Residue Count: 153 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Alpha-actinin-4153Homo sapiensMutation(s): 0 
Gene Names: ACTN4
UniProt & NIH Common Fund Data Resources
Find proteins for O43707 (Homo sapiens)
Explore O43707 
Go to UniProtKB:  O43707
PHAROS:  O43707
GTEx:  ENSG00000130402 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO43707
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 20 
  • Conformers Submitted: 20 
  • Selection Criteria: all calculated structures submitted 

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Slovenian Research AgencySloveniaN1-0191
Austrian Science FundAustriaI 5173-B
Slovenian Research AgencySloveniaP1-0140
Slovenian Research AgencySloveniaP1-0242
Slovenian Research AgencySloveniaI0-0022

Revision History  (Full details and data files)

  • Version 1.0: 2026-10-21
    Type: Initial release
  • Version 1.1: 2026-11-04
    Changes: Database references