5J69

Structure of Astrotactin-2, a conserved vertebrate-specific and perforin-like membrane protein involved in neuronal development

• PDB DOI: https://doi.org/10.2210/pdb5J69/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2016-04-04 Released: 2016-05-25 
• Deposition Author(s): Ni, T., Harlos, K., Gilbert, R.J.C.
• Funding Organization(s): Medical Research Council (United Kingdom)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.63 Å
• R-Value Free: 0.302 
• R-Value Work: 0.280 
• R-Value Observed: 0.281 

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 61.72 kDa 
• Atom Count: 4,094 
• Modelled Residue Count: 503 
• Deposited Residue Count: 532 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Astrotactin-2	A, B	266	Homo sapiens	Mutation(s): 0  Gene Names: ASTN2, KIAA0634
UniProt & NIH Common Fund Data Resources
Find proteins for O75129 (Homo sapiens) Explore O75129  Go to UniProtKB:  O75129
PHAROS:  O75129 GTEx:  ENSG00000148219

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	C [auth A], D [auth A], E [auth B], F [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.63 Å
• R-Value Free: 0.302 
• R-Value Work: 0.280 
• R-Value Observed: 0.281 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 98.7	α = 90
b = 86.6	β = 111.74
c = 108.36	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
xia2	data reduction
xia2	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2016-05-25 
Deposition Author(s): Ni, T., Harlos, K., Gilbert, R.J.C.

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Funding Organization	Location	Grant Number
Medical Research Council (United Kingdom)	United Kingdom	MR/N000331/1

Revision History  

• Version 1.0: 2016-05-25
  Type: Initial release
  
• Version 1.1: 2016-06-15
  Changes: Database references
• Version 1.2: 2017-09-13
  Changes: Author supporting evidence
• Version 1.3: 2019-04-03
  Changes: Data collection, Source and taxonomy
• Version 1.4: 2019-10-02
  Changes: Data collection, Derived calculations
• Version 1.5: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.6: 2024-01-10
  Changes: Data collection, Database references, Refinement description, Structure summary