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.

Macromolecule Content

• Total Structure Weight: 40.05 kDa 
• Atom Count: 3291 
• Modelled Residue Count: 330 
• Deposited Residue Count: 343 
• Unique protein chains: 1

1FO8

CRYSTAL STRUCTURE OF N-ACETYLGLUCOSAMINYLTRANSFERASE I

• PDB DOI: 10.2210/pdb1FO8/pdb

• Classification: TRANSFERASE
• Organism(s): Oryctolagus cuniculus
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2000-08-26 Released: 2001-04-25 
• Deposition Author(s): Unligil, U.M., Zhou, S., Yuwaraj, S., Sarkar, M., Schachter, H., Rini, J.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 0.185 
• R-Value Work: 0.165 
• R-Value Observed: 0.165 

Literature

X-ray crystal structure of rabbit N-acetylglucosaminyltransferase I: catalytic mechanism and a new protein superfamily.

Unligil, U.M., Zhou, S., Yuwaraj, S., Sarkar, M., Schachter, H., Rini, J.M.

(2000) EMBO J 19: 5269-5280

• PubMed: 11032794 
• DOI: 10.1093/emboj/19.20.5269
• Primary Citation of Related Structures:  
  1FO8, 1FO9, 1FOA


• PubMed Abstract: 
  

N:-acetylglucosaminyltransferase I (GnT I) serves as the gateway from oligomannose to hybrid and complex N:-glycans and plays a critical role in mammalian development and possibly all metazoans. We have determined the X-ray crystal structure of the catalytic fragment of GnT I in the absence and presence of bound UDP-GlcNAc/Mn(2+) at 1.5 and 1.8 A resolution, respectively. The structures identify residues critical for substrate binding and catalysis and provide evidence for similarity, at the mechanistic level, to the deglycosylation step of retaining beta-glycosidases. The structuring of a 13 residue loop, resulting from UDP-GlcNAc/Mn(2+) binding, provides an explanation for the ordered sequential 'Bi Bi' kinetics shown by GnT I. Analysis reveals a domain shared with Bacillus subtilis glycosyltransferase SpsA, bovine beta-1,4-galactosyl transferase 1 and Escherichia coli N:-acetylglucosamine-1-phosphate uridyltransferase. The low sequence identity, conserved fold and related functional features shown by this domain define a superfamily whose members probably share a common ancestor. Sequence analysis and protein threading show that the domain is represented in proteins from several glycosyltransferase families.

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Organizational Affiliation: 

Department of Medical Genetics and Microbiology, University of Toronto, Toronto, Ontario M5S 1A8, Canada.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ALPHA-1,3-MANNOSYL-GLYCOPROTEIN BETA-1,2-N-ACETYLGLUCOSAMINYLTRANSFERASE	A	343	Oryctolagus cuniculus	Mutation(s): 0  Gene Names: MGAT1, GNT1 EC: 2.4.1.101
UniProt
Find proteins for P27115 (Oryctolagus cuniculus) Explore P27115  Go to UniProtKB:  P27115

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MMC	B [auth A]	METHYL MERCURY ION C H3 Hg DBUXSCUEGJMZAE-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 0.185 
• R-Value Work: 0.165 
• R-Value Observed: 0.165 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.382	α = 90
b = 82.378	β = 90
c = 102.487	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2000-08-26 
• Released Date: 2001-04-25 
Deposition Author(s): Unligil, U.M., Zhou, S., Yuwaraj, S., Sarkar, M., Schachter, H., Rini, J.M.

Revision History  

• Version 1.0: 2001-04-25
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance