Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 31.85 kDa 
• Atom Count: 2062 
• Modelled Residue Count: 227 
• Deposited Residue Count: 268 
• Unique protein chains: 1

3MJ6

Crystal structure of the gammadelta T cell costimulatory receptor Junctional Adhesion Molecule-Like Protein, JAML

• PDB DOI: 10.2210/pdb3MJ6/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Mus musculus
• Expression System: Drosophila melanogaster
• Mutation(s): Yes 


• Deposited: 2010-04-12 Released: 2010-09-22 
• Deposition Author(s): Verdino, P., Wilson, I.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free: 0.213 
• R-Value Work: 0.170 
• R-Value Observed: 0.172 

Literature

The molecular interaction of CAR and JAML recruits the central cell signal transducer PI3K.

Verdino, P., Witherden, D.A., Havran, W.L., Wilson, I.A.

(2010) Science 329: 1210-1214

• PubMed: 20813955 
• DOI: 10.1126/science.1187996
• Primary Citation of Related Structures:  
  3MJ6, 3MJ7


• PubMed Abstract: 
  

Coxsackie and adenovirus receptor (CAR) is the primary cellular receptor for group B coxsackieviruses and most adenovirus serotypes and plays a crucial role in adenoviral gene therapy. Recent discovery of the interaction between junctional adhesion molecule-like protein (JAML) and CAR uncovered important functional roles in immunity, inflammation, and tissue homeostasis. Crystal structures of JAML ectodomain (2.2 angstroms) and its complex with CAR (2.8 angstroms) reveal an unusual immunoglobulin-domain assembly for JAML and a charged interface that confers high specificity. Biochemical and mutagenesis studies illustrate how CAR-mediated clustering of JAML recruits phosphoinositide 3-kinase (P13K) to a JAML intracellular sequence motif as delineated for the alphabeta T cell costimulatory receptor CD28. Thus, CAR and JAML are cell signaling receptors of the immune system with implications for asthma, cancer, and chronic nonhealing wounds.

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Related Citations: 

• The junctional adhesion molecule JAML is a costimulatory receptor for epithelial gammadelta T cell activation.
  Witherden, D.A., Verdino, P., Rieder, S.E., Garijo, O., Mills, R.E., Teyton, L., Fischer, W.H., Wilson, I.A., Havran, W.L.
  (2010) Science 329: 1205

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Organizational Affiliation: 

Department of Molecular Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Junctional adhesion molecule-like	A	268	Mus musculus	Mutation(s): 2  Gene Names: Amica1, Gm638, Jaml
UniProt
Find proteins for Q80UL9 (Mus musculus) Explore Q80UL9  Go to UniProtKB:  Q80UL9

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose	B	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G86851RC GlyCosmos:  G86851RC GlyGen:  G86851RC

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	C [auth A], D [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
FMT	F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A], L [auth A], M [auth A]	FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N
NA	E [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free: 0.213 
• R-Value Work: 0.170 
• R-Value Observed: 0.172 
• Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.946	α = 90
b = 61.946	β = 90
c = 82.477	γ = 90

Software Package:

Software Name	Purpose
SHELX	model building
RESOLVE	model building
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
SHELX	phasing
RESOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-04-12 
• Released Date: 2010-09-22 
Deposition Author(s): Verdino, P., Wilson, I.A.

Revision History  

• Version 1.0: 2010-09-22
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary