1R82

Glycosyltransferase B in complex with 3-amino-acceptor analog inhibitor, and uridine diphosphate-galactose

• PDB DOI: https://doi.org/10.2210/pdb1R82/pdb

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


• Deposited: 2003-10-22 Released: 2004-02-10 
• Deposition Author(s): Nguyen, H.P., Seto, N.O.L., Cai, Y., Leinala, E.K., Borisova, S.N., Palcic, M.M., Evans, S.V.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.258 
• R-Value Work: 0.242 

Biological Assembly 1  

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

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 generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 34.37 kDa 
• Atom Count: 2,403 
• Modelled Residue Count: 263 
• Deposited Residue Count: 283 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycoprotein-fucosylgalactoside alpha-galactosyltransferase	A	283	Homo sapiens	Mutation(s): 0  EC: 2.4.1.37
UniProt & NIH Common Fund Data Resources
Find proteins for P16442 (Homo sapiens) Explore P16442  Go to UniProtKB:  P16442
PHAROS:  P16442

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-L-fucopyranose-(1-2)-octyl 3-amino-3-deoxy-beta-D-galactopyranoside	B	2	N/A	N/A
Glycosylation Resources
GlyTouCan:  G17197TN GlyCosmos:  G17197TN

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GDU	C [auth A]	GALACTOSE-URIDINE-5'-DIPHOSPHATE C15 H24 N2 O17 P2 HSCJRCZFDFQWRP-ABVWGUQPSA-N
HG	D [auth A], E [auth A]	MERCURY (II) ION Hg BQPIGGFYSBELGY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.258 
• R-Value Work: 0.242 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.8	α = 90
b = 150.4	β = 90
c = 79.5	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-02-10 
Deposition Author(s): Nguyen, H.P., Seto, N.O.L., Cai, Y., Leinala, E.K., Borisova, S.N., Palcic, M.M., Evans, S.V.

Revision History  

• Version 1.0: 2004-02-10
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2022-12-21
  Changes: Database references, Structure summary