2D0J | pdb_00002d0j

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), 0.276 (DCC)
R-Value Work:
0.237 (Depositor), 0.236 (DCC)
R-Value Observed:
0.239 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history.

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.

Macromolecule Content

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

Macromolecules

Find similar proteins by:

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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9NPZ5
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.278 (Depositor), 0.276 (DCC)
R-Value Work: 0.237 (Depositor), 0.236 (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

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Entry History

Deposition Data

Released Date: 2006-07-18

Deposition Author(s):

Revision History (Full details and data files)

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

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.