Ser159 mutant of glycogenin complexed with UDP-glucose and manganese

Experimental Data Snapshot

  • Resolution: 2.30 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.237 
  • R-Value Observed: 0.238 

Starting Model: experimental
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Requirements for catalysis in mammalian glycogenin.

Hurley, T.D.Stout, S.Miner, E.Zhou, J.Roach, P.J.

(2005) J Biol Chem 280: 23892-23899

  • DOI: https://doi.org/10.1074/jbc.M502344200
  • Primary Citation of Related Structures:  
    1ZCT, 1ZCU, 1ZCV, 1ZCY, 1ZDF, 1ZDG

  • PubMed Abstract: 

    Glycogenin is a glycosyltransferase that functions as the autocatalytic initiator for the synthesis of glycogen in eukaryotic organisms. Prior structural work identified the determinants responsible for the recognition and binding of UDP-glucose and the catalytic manganese ion and implicated two aspartic acid residues in the reaction mechanism for self-glucosylation. We examined the effects of substituting asparagine and serine for the aspartic acid residues at positions 159 and 162. We also examined whether the truncation of the protein at residue 270 (delta270) was compatible with its structural integrity and its functional role as the initiator for glycogen synthesis. The truncated form of the enzyme was indistinguishable from the wild-type enzyme by all measures of activity and could support glycogen accumulation in a glycogenin-deficient yeast strain. Substitution of aspartate 159 by either serine or asparagine eliminated self-glucosylation and reduced trans-glucosylation activity by at least 260-fold but only reduced UDP-glucose hydrolytic activity by 4-14-fold. Substitution of aspartate 162 by either serine or asparagine eliminated self-glucosylation activity and reduced UDP-glucose hydrolytic activity by at least 190-fold. The trans-glucosylation of maltose was reduced to undetectable levels in the asparagine 162 mutant, whereas the serine 162 enzyme showed only an 18-30-fold reduction in its ability to trans-glucosylate maltose. These data support a role for aspartate 162 in the chemical step for the glucosyltransferase reaction and a role for aspartate 159 in binding and activating the acceptor molecule.

  • Organizational Affiliation

    Department of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana 46202-5122, USA. thurley@iupui.edu

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Glycogenin-1353Oryctolagus cuniculusMutation(s): 1 
Gene Names: GYGGYG1
Find proteins for P13280 (Oryctolagus cuniculus)
Explore P13280 
Go to UniProtKB:  P13280
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP13280
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.30 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.237 
  • R-Value Observed: 0.238 
  • Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 57.6α = 90
b = 106.69β = 90
c = 123.49γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-04-26
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.3: 2017-10-11
    Changes: Refinement description
  • Version 2.0: 2021-10-20
    Changes: Atomic model, Database references, Derived calculations
  • Version 2.1: 2023-08-23
    Changes: Advisory, Data collection, Derived calculations, Refinement description