2MK7 | pdb_00002mk7

Tetra-O-GalNAc glycosylated mucin sequence from alpha dystroglycan mucin domain


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 16 
  • Selection Criteria: structures with the least restraint violations 

wwPDB Validation 3D Report Full Report

Validation slider image for 2MK7

This is version 2.3 of the entry. See complete history

Literature

Contrasting the conformational effects of alpha-O-GalNAc and alpha-O-Man glycan protein modifications and their impact on the mucin-like region of alpha-dystroglycan.

Borgert, A.Foley, B.L.Live, D.

(2021) Glycobiology 31: 649-661

  • DOI: https://doi.org/10.1093/glycob/cwaa112
  • Primary Citation Related Structures: 
    2MK7

  • PubMed Abstract: 

    We have carried out a comparative study of the conformational impact of modifications to threonine residues of either α-O-Man or α-O-GalNAc in the context of a sequence from the mucin-like region of α-dystroglycan. Both such modifications can coexist in this domain of the glycoprotein. Solution NMR experiments and molecular dynamics calculations were employed. Comparing the results for an unmodified peptide Ac- PPTTTTKKP-NH2 sequence from α-dystroglycan, and glycoconjugates with either modification on the Ts, we find that the impact of the α-O-Man modification on the peptide scaffold is quite limited, while that of the α-O-GalNAc is more profound. The results for the α-O-GalNAc glycoconjugate are consistent with what has been seen earlier in other systems. Further examination of the NMR-based structure and the MD results suggest a more extensive network of hydrogen bond interactions within the α-O-GalNAc-threonine residue than has been previously appreciated, which influences the properties of the protein backbone. The conformational effects are relevant to the mechanical properties of α-dystroglycan.


  • Organizational Affiliation
    • Department of Medical Research, Gundersen Health System, 1900 South Ave., La Crosse, WI 54601, USA.

Macromolecule Content 

  • Total Structure Weight: 1.88 kDa 
  • Atom Count: 127 
  • Modeled Residue Count: 11 
  • Deposited Residue Count: 11 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Alpha-dystroglycan11Homo sapiensMutation(s): 2 
UniProt & NIH Common Fund Data Resources
Find proteins for Q14118 (Homo sapiens)
Explore Q14118 
Go to UniProtKB:  Q14118
PHAROS:  Q14118
GTEx:  ENSG00000173402 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ14118
Glycosylation
Glycosylation Sites: 4Go to GlyGen: Q14118-1
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 16 
  • Selection Criteria: structures with the least restraint violations 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-02-04
    Type: Initial release
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary
  • Version 2.1: 2022-08-24
    Changes: Database references, Structure summary
  • Version 2.2: 2023-06-14
    Changes: Other
  • Version 2.3: 2024-11-06
    Changes: Data collection, Database references, Structure summary