2D0J

Crystal Structure of Human GlcAT-S Apo Form

• PDB DOI: https://doi.org/10.2210/pdb2D0J/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2005-08-03 Released: 2006-07-18 
• Deposition Author(s): Shiba, T., Kakuda, S., Ishiguro, M., Oka, S., Kawasaki, T., Wakatsuki, S., Kato, R.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.278 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.237 (Depositor), 0.240 (DCC) 
• R-Value Observed: 
  0.239 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of GlcAT-S, a human glucuronyltransferase, involved in the biosynthesis of the HNK-1 carbohydrate epitope

Shiba, T., Kakuda, S., Ishiguro, M., Morita, I., Oka, S., Kawasaki, T., Wakatsuki, S., Kato, R.

To be published.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 112.94 kDa 
• Atom Count: 8,273 
• Modelled Residue Count: 967 
• Deposited Residue Count: 984 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase 2	A, B, C, D	246	Homo sapiens	Mutation(s): 0  EC: 2.4.1.135
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NPZ5 (Homo sapiens) Explore Q9NPZ5  Go to UniProtKB:  Q9NPZ5
PHAROS:  Q9NPZ5 GTEx:  ENSG00000112309

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.278 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.237 (Depositor), 0.240 (DCC) 
• R-Value Observed: 0.239 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 110.402	α = 90
b = 122.591	β = 108.2
c = 92.985	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
HKL-2000	data reduction
MOLREP	phasing
CNS	refinement
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-07-18 
Deposition Author(s): Shiba, T., Kakuda, S., Ishiguro, M., Oka, S., Kawasaki, T., Wakatsuki, S., Kato, R.

Revision History  

• Version 1.0: 2006-07-18
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-10-25
  Changes: Data collection, Database references, Refinement description