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Glycosciences.DB structure entry #5984: Thomsen-Friedenreich (TF) antigen / Mucin-type O-glycan core 1 (Thr-linked)

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Format: CarbBank LINUCS GlycoCT_xml


 b-D-Galp-(1-3)-a-D-GalpNAc-(1-3)-Thr


<?xml version="1.0" encoding="UTF-8"?>
 <sugar version="1.0">
 <residues>
 <basetype id="1" anomer="a" superclass="hex" ringStart="1" ringEnd="5" name="a-dgal-HEX-1:5">
 <stemtype id="1" type="dgal" />
 </basetype>
 <substituent id="2" name="n-acetyl" />
 <basetype id="3" anomer="b" superclass="hex" ringStart="1" ringEnd="5" name="b-dgal-HEX-1:5">
 <stemtype id="1" type="dgal" />
 </basetype>
 </residues>
 <linkages>
 <connection id="1" parent="1" child="2">
 <linkage id="1" parentType="d" childType="n">
 <parent pos="2" />
 <child pos="1" />
 </linkage>
 </connection>
 <connection id="2" parent="1" child="3">
 <linkage id="2" parentType="o" childType="d">
 <parent pos="3" />
 <child pos="1" />
 </linkage>
 </connection>
 </linkages>
 <aglyca>
 <historicalData>
 <entry id="0" name="THR" toResidue="1">
 <linkage parentType="n" childType="x">
 <parent pos="3" />
 <child pos="1" />
 </linkage>
 </entry>
 </historicalData>
 </aglyca>
 </sugar>

SNFG-style Graphics

3D Structure Model

download coordinates

Corresponding entries: 44

1 - 5 of 44 entries with matching glycan part

Structure entry #571:

b-D-Galp-(1-3)-a-D-GalpNAc-(1-3)+ | b-D-Galp-(1-3)-a-D-GalpNAc-(1-3)+ Ser | | Ser-(1-2)+ | b-D-Galp-(1-3)-a-D-GalpNAc-(1-3)-Ser-(1-2)+

no 3d model

no NMR spectra

literature references

no GlycoMaps

Taxons

Structure entry #578:

b-D-Galp-(1-3)-a-D-GalpNAc-(1-3)+ | Thr-(1-2)-Ser-(1-2)-Ser | Ala-(1-2)-Pro-(1-2)+

no 3d model

no NMR spectra

literature references

no GlycoMaps

Taxons

Structure entry #584: SST peptide with two T antigens

b-D-Galp-(1-3)-a-D-GalpNAc-(1-3)+ | b-D-Galp-(1-3)-a-D-GalpNAc-(1-3)+ Thr | | Ser-(1-2)+ | Ser-(1-2)+

no 3d model

no NMR spectra

literature references

no GlycoMaps

Taxons

Structure entry #611: Thomsen-Friedenreich (TF) antigen (glycan part)

b-D-Galp-(1-3)-a-D-GalpNAc

NMR spectra

literature references

GlycoMaps

Structure entry #672: Thomsen-Friedenreich (TF) antigen / Mucin-type O-glycan core 1 (Ser-linked)

b-D-Galp-(1-3)-a-D-GalpNAc-(1-3)-Ser

no NMR spectra

literature references

no GlycoMaps

O-glycan core1 (Show) (Search Database)

Thomsen-Friedenreich antigen
TF antigen
T antigen

Thomsen-Friedenreich antigen
TF antigen
T antigen

General Structure Data

Chemical Formula:	C₁₈H₃₂N₂O₁₂		#C	#H	#O	#N
Molec. Weight:	468		18	32	12	2
# Atoms:	64
# Residues:	3
# Heavy Atoms:	32

Superclasses:

Hex
Hex	1
HexNAc	1

Residues:

Residue	Count
A-D-GALPNAC	1
B-D-GALP	1
THR	1

PDB references: 8

1 - 5 of 8 PDB entries

PDB ID 7yx8: Crystal structure of the AM0627 (E326A) inactive mutant in complex with PSGL-1-like bis-T glycopeptide and Zn2+

Description:

Source: Akkermansia muciniphila

Experimental method: X-RAY DIFFRACTION

Resolution: 1.5Å

Release date: 2022-07-20

Entry features 1 distinct glycan structures [4 instances].

PDB ID 6z2p: Crystal structure of catalytic inactive OgpA from Akkermansia muciniphila in complex with an O-glycopeptide (glycodrosocin) substrate

Description:

Source: Akkermansia muciniphila ATCC BAA-835

Experimental method: X-RAY DIFFRACTION

Resolution: 2.16Å

Release date: 2020-09-30

Entry features 1 distinct glycan structures [1 instances].

PDB ID 6z2q: Crystal structure of wild type OgpA from Akkermansia muciniphila in complex with an O-glycopeptide (GalGalNAc-TS) product

Description:

Source: Akkermansia muciniphila ATCC BAA-835

Experimental method: X-RAY DIFFRACTION

Resolution: 2.347Å

Release date: 2020-09-30

Entry features 1 distinct glycan structures [1 instances].

PDB ID 5ik5: Laminin A2LG45 C-form, G6/7 bound.

Description: Laminin subunit alpha-2

Source: Mus musculus

Experimental method: X-RAY DIFFRACTION

Resolution: 1.39Å

Release date: 2016-08-10

Entry features 2 distinct glycan structures [2 instances].

PDB ID 3qum: Crystal structure of human prostate specific antigen (PSA) in Fab sandwich with a high affinity and a PCa selective antibody

Description: Prostate-specific antigen (E.C.3.4.21.77), Fab 5D3D11 Light Chain, Fab 5D3D11 Heavy Chain, Fab 5D5A5 Light Chain, Fab 5D5A5 Heavy Chain

Source: Homo sapiens, Mus musculus

Experimental method: X-RAY DIFFRACTION

Resolution: 3.2Å

Release date: 2011-11-09

Entry features 3 distinct glycan structures [3 instances].

Literature references: 56

1 - 5 of 56 literature references

Reference #21993

Konstantinidi A; Nason R; Čaval T; Sun L; Sørensen DM; Furukawa S; Ye Z; Vincentelli R; Narimatsu Y; Vakhrushev SY; Clausen H

Exploring the glycosylation of mucins by use of O-glycodomain reporters recombinantly expressed in glycoengineered HEK293 cells.

Published 2022 in J Biol Chem, 298: 101784

Reference contains 10 structures

Reference #22495

Loci and motifs of the GalNAcα1 → 3/O related glycotopes in the mammalian glycoconjugates and their lectin recognition roles.

Published 2022 in Glycoconj J, 39: 633-651

Reference contains 38 structures

Reference #22564

Medley BJ; Leclaire L; Thompson N; Mahoney KE; Pluvinage B; Parson MAH; Burke JE; Malaker S; Wakarchuk W; Boraston AB

A previously uncharacterized O-glycopeptidase from Akkermansia muciniphila requires the Tn-antigen for cleavage of the peptide bond.

Published 2022 in J Biol Chem, 298: 102439

Reference contains 5 structures

Reference #21956

Sim L; Thompson N; Geissner A; Withers SG; Wakarchuk WW

Mammalian sialyltransferases allow efficient Escherichia coli-based production of mucin-type O-glycoproteins but can also transfer Kdo.

Published 2022 in Glycobiology, 32: 429-440

Reference contains 12 structures

Reference #22633

Rong Y; Wang X; Mao W; Yuan F; Chen M; Wang S; Wang PG; Wu Z; He Y; Kong Y

Chemoenzymatic Synthesis of SARS-CoV-2 Homogeneous O-Linked Glycopeptides for Exploring Their Inhibition Functions.

Published 2022 in ACS Infect Dis, 8: 2198-2206

Reference contains 8 structures

Further literature references from PDB entries: 6

1 - 5 of 6 literature references from PDB entries

Reference #22252

Trastoy B; Naegeli A; Anso I; Sjögren J; Guerin ME

Structural basis of mammalian mucin processing by the human gut O-glycopeptidase OgpA from Akkermansia muciniphila.

Published 2020 in Nat Commun, 11: 4844

Reference #20038

Briggs DC; Yoshida-Moriguchi T; Zheng T; Venzke D; Anderson ME; Strazzulli A; Moracci M; Yu L; Hohenester E; Campbell KP

Structural basis of laminin binding to the LARGE glycans on dystroglycan.

Published 2016 in Nat. Chem. Biol., 12: 810-4

Reference #17971

Bian CF; Zhang Y; Sun H; Li DF; Wang DC

Structural basis for distinct binding properties of the human galectins to Thomsen-Friedenreich antigen.

Published 2011 in PLoS ONE, 6: e25007

Reference #17996

Muller BH; Savatier A; L'Hostis G; Costa N; Bossus M; Michel S; Ott C; Becquart L; Ruffion A; Stura EA; Ducancel F

In vitro affinity maturation of an anti-PSA antibody for prostate cancer diagnostic assay.

Published 2011 in J. Mol. Biol., 414: 545-62

Reference #17568

Feng L; Sun H; Zhang Y; Li DF; Wang DC

Structural insights into the recognition mechanism between an antitumor galectin AAL and the Thomsen-Friedenreich antigen.

Published 2010 in FASEB J., 24: 3861-8

NCBI Taxonomy ID	Scientific Name
9913	Bos taurus
10029	Cricetulus griseus
9606	Homo sapiens
9986	Oryctolagus cuniculus
185739	Pollachius pollachius

Consortium for Functional Glycomics (CFG):

GlycoEpitope DB:

EP0020

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