5F3X

Crystal structure of Harmonin NPDZ1 in complex with ANKS4B SAM-PBM


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.649 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.227 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Mechanistic Basis of Organization of the Harmonin/USH1C-Mediated Brush Border Microvilli Tip-Link Complex

Li, J.He, Y.Lu, Q.Zhang, M.

(2016) Dev.Cell 36: 179-189

  • DOI: 10.1016/j.devcel.2015.12.020
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Brush border microvilli are actin-based protrusions lining the apical surface of epithelial cells in intestines and proximal tubules of kidneys. While brush border microvilli resemble the relatively well-characterized stereocilia of hair cells, the m ...

    Brush border microvilli are actin-based protrusions lining the apical surface of epithelial cells in intestines and proximal tubules of kidneys. While brush border microvilli resemble the relatively well-characterized stereocilia of hair cells, the mechanistic basis of tip-link complex organization in microvilli is poorly understood. Here, we have biochemically and structurally characterized the following pairs of interactions: protocadherin 24 and Harmonin (also known as USH1C or AIE-75), Harmonin and myosin VIIb (MYO7B), Harmonin and ANKS4B, and ANKS4B and MYO7B. We show that Harmonin, ANKS4B, and MYO7B form a stable ternary complex for anchoring microvilli tip-link cadherins. Despite having only Harmonin in common, the microvilli and the stereocilia tip-link complexes are formed via strikingly similar interaction modes. These results not only provide insight into the mechanistic bases of brush border microvilli formation and maintenance but may also be valuable for understanding some gut and/or kidney diseases caused by perturbations of brush border microvilli structures.


    Organizational Affiliation

    Division of Life Science, State Key Laboratory of Molecular Neuroscience, Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Harmonin
A, C
196Homo sapiensMutation(s): 0 
Gene Names: USH1C (AIE75)
Find proteins for Q9Y6N9 (Homo sapiens)
Go to Gene View: USH1C
Go to UniProtKB:  Q9Y6N9
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Ankyrin repeat and SAM domain-containing protein 4B
B, D
81Mus musculusMutation(s): 0 
Gene Names: Anks4b (Harp)
Find proteins for Q8K3X6 (Mus musculus)
Go to UniProtKB:  Q8K3X6
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

Download SDF File 
Download CCD File 
A, C
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.649 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.227 
  • Space Group: P 32
Unit Cell:
Length (Å)Angle (°)
a = 124.566α = 90.00
b = 124.566β = 90.00
c = 49.654γ = 120.00
Software Package:
Software NamePurpose
PHASERphasing
HKL-2000data scaling
PHENIXrefinement
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-03-16
    Type: Initial release