5WJM

Crystal Structure of Mouse Cadherin-23 EC17-18

  • PDB DOI:  https://doi.org/10.2210/pdb5WJM/pdb
  • Classification:  CELL ADHESION
  • Organism(s):  Mus musculus
  • Expression System:  Escherichia coli BL21
  • Mutation(s): No 

  • Deposited: 2017-07-23 Released: 2018-07-04 
  • Deposition Author(s):  De-la-Torre, P., Sotomayor, M.
  • Funding Organization(s): National Institutes of Health/National Institute on Deafness and Other Communication Disorders (NIH/NIDCD)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.203 

wwPDB Validation   3D Report  Full Report


This is version 1.4 of the entry. See complete  history. 


Literature

Zooming in on Cadherin-23: Structural Diversity and Potential Mechanisms of Inherited Deafness.

Jaiganesh, A.,  De-la-Torre, P.,  Patel, A.A.,  Termine, D.J.,  Velez-Cortes, F.,  Chen, C.,  Sotomayor, M.

(2018) Structure 26: 1210

  • DOI:  https://doi.org/10.1016/j.str.2018.06.003
  • Primary Citation of Related Structures:  
    5I8D, 5TFK, 5TFL, 5TFM, 5ULU, 5UN2, 5UZ8, 5VH2, 5VT8, 5VVM, 5W4T, 5WJ8, 5WJM

  • PubMed Abstract: 

    Cadherin-23 (CDH23) is an essential component of hair-cell tip links, fine filaments that mediate inner-ear mechanotransduction. The extracellular domain of CDH23 forms about three-fourths of the tip link with 27 extracellular cadherin (EC) repeats that are structurally similar but not identical to each other. Calcium (Ca 2+ ) coordination at the EC linker regions is key for tip-link elasticity and function. There are ∼116 sites in CDH23 affected by deafness-causing mutations, many of which alter conserved Ca 2+ -binding residues. Here we present crystal structures showing 18 CDH23 EC repeats, including the most and least conserved, a fragment carrying disease mutations, and EC repeats with non-canonical Ca 2+ -binding motif sequences and unusual secondary structure. Complementary experiments show deafness mutations' effects on stability and affinity for Ca 2+ . Additionally, a model of nine contiguous CDH23 EC repeats reveals helicity and potential parallel dimerization faces. Overall, our studies provide detailed structural insight into CDH23 function in mechanotransduction.


  • Organizational Affiliation

    Department of Chemistry and Biochemistry, The Ohio State University, 484 West 12th Avenue, Columbus, OH 43210, USA; Biophysics Graduate Program, The Ohio State University, Columbus, OH 43210, USA.


Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
MPD
Query on MPD

Download Ideal Coordinates CCD File 
I [auth A],
J [auth A]
(4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
 Interactions  
 Interactions & Density  
CA
Query on CA

Download Ideal Coordinates CCD File 
B [auth A]
C [auth A]
D [auth A]
E [auth A]
F [auth A]
B [auth A],
C [auth A],
D [auth A],
E [auth A],
F [auth A],
G [auth A]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Interactions  
 Interactions & Density  
K
Query on K

Download Ideal Coordinates CCD File 
H [auth A]POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
 Interactions  
 Interactions & Density  

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