4P79

Crystal structure of mouse claudin-15

• PDB DOI: https://doi.org/10.2210/pdb4P79/pdb

• Classification: CELL ADHESION
• Organism(s): Mus musculus
• Expression System: Spodoptera frugiperda
• Mutation(s): Yes 
• Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc


• Deposited: 2014-03-26 Released: 2014-04-30 
• Deposition Author(s): Suzuki, H., Nishizawa, T., Tani, K., Yamazaki, Y., Tamura, A., Ishitani, R., Dohmae, N., Tsukita, S., Nureki, O., Fujiyoshi, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.253 
• R-Value Work: 0.221 
• R-Value Observed: 0.224 

Literature

Crystal structure of a claudin provides insight into the architecture of tight junctions.

Suzuki, H., Nishizawa, T., Tani, K., Yamazaki, Y., Tamura, A., Ishitani, R., Dohmae, N., Tsukita, S., Nureki, O., Fujiyoshi, Y.

(2014) Science 344: 304-307

• PubMed: 24744376 
• DOI: https://doi.org/10.1126/science.1248571
• Primary Citation of Related Structures:  
  4P79


• PubMed Abstract: 
  

  Tight junctions are cell-cell adhesion structures in epithelial cell sheets that surround organ compartments in multicellular organisms and regulate the permeation of ions through the intercellular space. Claudins are the major constituents of tight junctions and form strands that mediate cell adhesion and function as paracellular barriers. We report the structure of mammalian claudin-15 at a resolution of 2.4 angstroms. The structure reveals a characteristic β-sheet fold comprising two extracellular segments, which is anchored to a transmembrane four-helix bundle by a consensus motif. Our analyses suggest potential paracellular pathways with distinctive charges on the extracellular surface, providing insight into the molecular basis of ion homeostasis across tight junctions.

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Organizational Affiliation: 

Cellular and Structural Physiology Institute, Nagoya University, Chikusa, Nagoya 464-8601, Japan.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 22.16 kDa 
• Atom Count: 1,391 
• Modelled Residue Count: 181 
• Deposited Residue Count: 198 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Claudin-15	A	198	Mus musculus	Mutation(s): 4  Gene Names: Cldn15 Membrane Entity: Yes
UniProt
Find proteins for Q9Z0S5 (Mus musculus) Explore Q9Z0S5  Go to UniProtKB:  Q9Z0S5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
OLC	B [auth A], C [auth A]	(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate C21 H40 O4 RZRNAYUHWVFMIP-GDCKJWNLSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.253 
• R-Value Work: 0.221 
• R-Value Observed: 0.224 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 123.25	α = 90
b = 28.403	β = 100.84
c = 58.587	γ = 90

Software Package:

Software Name	Purpose
XDS	data scaling
PDB_EXTRACT	data extraction
PHENIX	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-04-30 
Deposition Author(s): Suzuki, H., Nishizawa, T., Tani, K., Yamazaki, Y., Tamura, A., Ishitani, R., Dohmae, N., Tsukita, S., Nureki, O., Fujiyoshi, Y.

Revision History  

• Version 1.0: 2014-04-30
  Type: Initial release
  
• Version 1.1: 2014-05-07
  Changes: Derived calculations
• Version 1.2: 2017-09-27
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description, Source and taxonomy
• Version 1.3: 2017-10-11
  Changes: Data collection
• Version 1.4: 2023-12-27
  Changes: Data collection, Database references, Refinement description