5H5M

Crystal structure of HMP-1 M domain

  • Classification: CELL ADHESION
  • Organism(s): Caenorhabditis elegans
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2016-11-08 Released: 2017-03-29 
  • Deposition Author(s): Kang, H., Bang, I., Weis, W.I., Choi, H.J.
  • Funding Organization(s): National Research Foundation of Korea, National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.248 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.205 

wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history


Literature

Structural and functional characterization of Caenorhabditis elegans alpha-catenin reveals constitutive binding to beta-catenin and F-actin

Kang, H.Bang, I.Jin, K.S.Lee, B.Lee, J.Shao, X.Heier, J.A.Kwiatkowski, A.V.Nelson, W.J.Hardin, J.Weis, W.I.Choi, H.J.

(2017) J Biol Chem 292: 7077-7086

  • DOI: https://doi.org/10.1074/jbc.M116.769778
  • Primary Citation of Related Structures:  
    5H5M

  • PubMed Abstract: 

    Intercellular epithelial junctions formed by classical cadherins, β-catenin, and the actin-binding protein α-catenin link the actin cytoskeletons of adjacent cells into a structural continuum. These assemblies transmit forces through the tissue and respond to intracellular and extracellular signals. However, the mechanisms of junctional assembly and regulation are poorly understood. Studies of cadherin-catenin assembly in a number of metazoans have revealed both similarities and unexpected differences in the biochemical properties of the cadherin·catenin complex that likely reflect the developmental and environmental requirements of different tissues and organisms. Here, we report the structural and biochemical characterization of HMP-1, the Caenorhabditis elegans α-catenin homolog, and compare it with mammalian α-catenin. HMP-1 shares overall similarity in structure and actin-binding properties, but displayed differences in conformational flexibility and allosteric regulation from mammalian α-catenin. HMP-1 bound filamentous actin with an affinity in the single micromolar range, even when complexed with the β-catenin homolog HMP-2 or when present in a complex of HMP-2 and the cadherin homolog HMR-1, indicating that HMP-1 binding to F-actin is not allosterically regulated by the HMP-2·HMR-1 complex. The middle ( i.e. M) domain of HMP-1 appeared to be less conformationally flexible than mammalian α-catenin, which may underlie the dampened effect of HMP-2 binding on HMP-1 actin-binding activity compared with that of the mammalian homolog. In conclusion, our data indicate that HMP-1 constitutively binds β-catenin and F-actin, and although the overall structure and function of HMP-1 and related α-catenins are similar, the vertebrate proteins appear to be under more complex conformational regulation.


  • Organizational Affiliation

    From the School of Biological Sciences, Seoul National University, Seoul 08826, South Korea.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Alpha-catenin-like protein hmp-1
A, B
381Caenorhabditis elegansMutation(s): 0 
Gene Names: hmp-1R13H4.4
UniProt
Find proteins for P90947 (Caenorhabditis elegans)
Explore P90947 
Go to UniProtKB:  P90947
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP90947
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.248 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.205 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 72.849α = 90
b = 81.532β = 90
c = 151.386γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
SCALEPACKdata scaling
PHASERphasing
PHENIXrefinement
PDB_EXTRACTdata extraction
Cootmodel building
HKLdata reduction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Research Foundation of KoreaKorea, Republic OfNRF-2014R1A4A10052590
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM094663
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM114462
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM058038
National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)United StatesHL127711

Revision History  (Full details and data files)

  • Version 1.0: 2017-03-29
    Type: Initial release
  • Version 1.1: 2017-05-24
    Changes: Database references
  • Version 1.2: 2017-10-18
    Changes: Author supporting evidence
  • Version 1.3: 2022-03-23
    Changes: Author supporting evidence, Database references
  • Version 1.4: 2022-12-14
    Changes: Database references, Structure summary
  • Version 1.5: 2022-12-21
    Changes: Structure summary