1KYJ

Tumor Associated Mucin Motif from CD43 protein


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 59 
  • Selection Criteria: No NOE violations greter than 0.15A, no coupling violation greater than 0.5 Hz, no angle violation greater than 5 deg. 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Principles of Mucin Architecture: Structural Studies on Synthetic Glycopeptides Bearing Clustered Mono-, Di-, Tri-, and Hexasaccharide Glycodomains

Coltart, D.M.Royyuru, A.K.Williams, L.J.Glunz, P.W.Sames, D.Kuduk, S.D.Schwarz, J.B.Chen, X.T.Danishefsky, S.J.Live, D.H.

(2002) J.Am.Chem.Soc. 124: 9833-9844


  • PubMed Abstract: 
  • The structural characteristics of a mucin glycopeptide motif derived from the N-terminal fragment STTAV of the cell surface glycoprotein CD43 have been investigated by NMR. In this study, a series of molecules prepared by total synthesis were examine ...

    The structural characteristics of a mucin glycopeptide motif derived from the N-terminal fragment STTAV of the cell surface glycoprotein CD43 have been investigated by NMR. In this study, a series of molecules prepared by total synthesis were examined, consisting of the peptide itself, three glycopeptides having clustered sites of alpha-O-glycosylation on the serine and threonine side chains with the Tn, TF, and STF carbohydrate antigens, respectively, and one with the beta-O-linked TF antigen. Additionally, a glycopeptide having the sequence SSSAVAV, triglycosylated with the Le(y) epitope, was investigated. NMR data for the tri-STF-STTAV glycopeptide were used to solve the structure of this construct through restrained molecular dynamics calculations. The calculations revealed a defined conformation for the glycopeptide core rooted in the interaction of the peptide and the first N-acetylgalactosamine residue. The similarity of the NMR data for each of the alpha-O-linked glycopeptides demonstrates that this structure persists for each construct and that the mode of attachment of the first sugar and the peptide is paramount in establishing the organization of the core. The core provides a common framework on which a variety of glycans may be displayed. Remarkably, while there is a profound organizational effect on the peptide backbone with the alpha-linked glycans, attachment via a beta-linkage has little apparent consequence.


    Related Citations: 
    • Probing Cell-Surface Architecture Through Synthesis: An NMR Determined Structural Motif for Tumor-Associated Mucins
      Live, D.H.,Williams, L.J.,Kuduk, S.D.,Schwarz, J.B.,Glunz, P.W.,Chen, X.-T.,Sames, D.,Kumar, R.A.,Danishefsky, S.J.
      (1999) Proc.Natl.Acad.Sci.USA 96: 3489


    Organizational Affiliation

    Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota Medical School, Minneapolis, Minnesota 55455, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Leukosialin (CD43) fragment
A
6N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
A2G
Query on A2G

Download SDF File 
Download CCD File 
A
N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE
C8 H15 N O6
OVRNDRQMDRJTHS-CBQIKETKSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
ACE
Query on ACE
A
NON-POLYMERC2 H4 O

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Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 200 
  • Conformers Submitted: 59 
  • Selection Criteria: No NOE violations greter than 0.15A, no coupling violation greater than 0.5 Hz, no angle violation greater than 5 deg. 
  • Olderado: 1KYJ Olderado

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-02-20
    Type: Initial release
  • Version 1.1: 2008-04-28
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance