2LHY | pdb_00002lhy

Di-O-GalNAc glycosylated Mucin sequence based on MUC2 Mucin glycoprotein tandem repeat

• PDB DOI: https://doi.org/10.2210/pdb2LHY/pdb
• BMRB: 17871

• Classification: SUGAR BINDING PROTEIN
• Organism(s): synthetic construct
• Mutation(s): No 


• Deposited: 2011-08-18 Released: 2012-04-04 
• Deposition Author(s): Borgert, A., Heimburg-Molinaro, J., Lasanajak, Y., Ju, T., Liu, M., Thompson, P., Ragupathi, G., Barany, G., Cummings, R., Smith, D., Live, D.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 29 
• Selection Criteria: structures with the least restraint violations 

Literature

Deciphering structural elements of mucin glycoprotein recognition.

Borgert, A., Heimburg-Molinaro, J., Song, X., Lasanajak, Y., Ju, T., Liu, M., Thompson, P., Ragupathi, G., Barany, G., Smith, D.F., Cummings, R.D., Live, D.

(2012) ACS Chem Biol 7: 1031-1039

• PubMed: 22444368 
• DOI: https://doi.org/10.1021/cb300076s
• Primary Citation Related Structures: 
  2LHV, 2LHW, 2LHX, 2LHY, 2LHZ, 2LI0, 2LI1, 2LI2


• PubMed Abstract: 
  

  Mucin glycoproteins present a complex structural landscape arising from the multiplicity of glycosylation patterns afforded by their numerous serine and threonine glycosylation sites, often in clusters, and with variations in respective glycans. To explore the structural complexities in such glycoconjugates, we used NMR to systematically analyze the conformational effects of glycosylation density within a cluster of sites. This allows correlation with molecular recognition through analysis of interactions between these and other glycopeptides, with antibodies, lectins, and sera, using a glycopeptide microarray. Selective antibody interactions with discrete conformational elements, reflecting aspects of the peptide and disposition of GalNAc residues, are observed. Our results help bridge the gap between conformational properties and molecular recognition of these molecules, with implications for their physiological roles. Features of the native mucin motifs impact their relative immunogenicity and are accurately encoded in the antibody binding site, with the conformational integrity being preserved in isolated glycopeptides, as reflected in the antibody binding profile to array components.

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Organizational Affiliation: 
• Center for Magnetic Resonance Research, University of Minnesota, Minneapolis, MN 55455, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 1.22 kDa 
• Atom Count: 84 
• Modeled Residue Count: 9 
• Deposited Residue Count: 9 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MUC2 Mucin Domain Peptide	A	9	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A2G	B [auth A], C [auth A]	2-acetamido-2-deoxy-alpha-D-galactopyranose C8 H15 N O6 OVRNDRQMDRJTHS-CBQIKETKSA-N

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 29 
• Selection Criteria: structures with the least restraint violations 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-04-04 
Deposition Author(s): Borgert, A., Heimburg-Molinaro, J., Lasanajak, Y., Ju, T., Liu, M., Thompson, P., Ragupathi, G., Barany, G., Cummings, R., Smith, D., Live, D.

Revision History  

• Version 1.0: 2012-04-04
  Type: Initial release
  
• Version 1.1: 2012-06-27
  Changes: Database references
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Source and taxonomy, Structure summary
• Version 2.1: 2023-06-14
  Changes: Database references, Other, Structure summary
• Version 2.2: 2024-10-16
  Changes: Data collection, Database references, Structure summary