5A2K image
Deposition Date 2015-05-20
Release Date 2015-06-03
Last Version Date 2024-11-13
Entry Detail
PDB ID:
5A2K
Keywords:
Title:
Crystal structure of scFv-SM3 in complex with APD-TGalNAc-RP
Biological Source:
Source Organism:
MUS MUSCULUS (Taxon ID: 10090)
HOMO SAPIENS (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.70 Å
R-Value Free:
0.21
R-Value Work:
0.17
R-Value Observed:
0.17
Space Group:
P 21 21 21
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:IG LAMBDA-1 CHAIN V REGION S43
Chain IDs:A (auth: H)
Chain Length:244
Number of Molecules:1
Biological Source:MUS MUSCULUS
Polymer Type:polypeptide(L)
Molecule:ANTIGEN TN, THR IS COVALENTLY BOUND TO GALNAC
Chain IDs:B (auth: P)
Chain Length:6
Number of Molecules:1
Biological Source:HOMO SAPIENS
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
THR B THR GLYCOSYLATION SITE
Primary Citation
Deciphering the Non-Equivalence of Serine and Threonine O-Glycosylation Points: Implications for Molecular Recognition of the Tn Antigen by an Anti-Muc1 Antibody.
Angew.Chem.Int.Ed.Engl. 54 9830 ? (2015)
PMID: 26118689 DOI: 10.1002/ANIE.201502813

Abstact

The structural features of MUC1-like glycopeptides bearing the Tn antigen (α-O-GalNAc-Ser/Thr) in complex with an anti MUC-1 antibody are reported at atomic resolution. For the α-O-GalNAc-Ser derivative, the glycosidic linkage adopts a high-energy conformation, barely populated in the free state. This unusual structure (also observed in an α-S-GalNAc-Cys mimic) is stabilized by hydrogen bonds between the peptidic fragment and the sugar. The selection of a particular peptide structure by the antibody is thus propagated to the carbohydrate through carbohydrate/peptide contacts, which force a change in the orientation of the sugar moiety. This seems to be unfeasible in the α-O-GalNAc-Thr glycopeptide owing to the more limited flexibility of the side chain imposed by the methyl group. Our data demonstrate the non-equivalence of Ser and Thr O-glycosylation points in molecular recognition processes. These features provide insight into the occurrence in nature of the APDTRP epitope for anti-MUC1 antibodies.

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Primary Citation of related structures