1ODZ

Expansion of the glycosynthase repertoire to produce defined manno-oligosaccharides


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free: 0.177 
  • R-Value Work: 0.151 
  • R-Value Observed: 0.152 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 2.1 of the entry. See complete history


Literature

Expansion of the Glycosynthase Repertoire to Produce Defined Manno-Oligosaccharides

Jahn, M.Stoll, D.Warren, R.A.J.Szabo, L.Singh, P.Gilbert, H.J.Ducros, V.M.A.Davies, G.J.Withers, S.G.

(2003) Chem Commun (Camb) 12: 1327-1329

  • DOI: https://doi.org/10.1039/b302380j
  • Primary Citation of Related Structures:  
    1ODZ

  • PubMed Abstract: 

    Mutant endo-mannanases, in which the catalytic nucleophile has been replaced, function as glycosynthases in the synthesis of manno-oligosaccharides of defined lengths.


  • Organizational Affiliation

    Department of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, BC V6T 1Z1, Canada.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Mannan endo-1,4-beta-mannosidase
A, B
386Cellvibrio japonicusMutation(s): 1 
Gene Names: manAman26ACJA_2770
EC: 3.2.1.78
UniProt
Find proteins for P49424 (Cellvibrio japonicus (strain Ueda107))
Explore P49424 
Go to UniProtKB:  P49424
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP49424
Sequence Annotations
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 2
MoleculeChains Length2D Diagram Glycosylation3D Interactions
beta-D-mannopyranose-(1-4)-alpha-D-mannopyranose
C, D
2N/A
Glycosylation Resources
GlyTouCan:  G78926JO
GlyCosmos:  G78926JO
GlyGen:  G78926JO
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free: 0.177 
  • R-Value Work: 0.151 
  • R-Value Observed: 0.152 
  • Space Group: P 41
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 131.855α = 90
b = 131.855β = 90
c = 54.268γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2003-07-10
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2018-06-20
    Changes: Data collection, Database references, Source and taxonomy, Structure summary
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Derived calculations, Other, Structure summary
  • Version 2.1: 2023-12-13
    Changes: Data collection, Database references, Refinement description, Structure summary