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Glycosciences.DB structure entry #2312: Blood group B trisaccharide (beta-anomeric form)
a-D-Galp-(1-3)+
|
b-D-Galp
|
a-L-Fucp-(1-2)+
[][B-D-GALP]{[(2+1)][A-L-FUCP]{}[(3+1)][A-D-GALP]{}}
RES
1b:b-dgal-HEX-1:5
2b:a-lgal-HEX-1:5|6:d
3b:a-dgal-HEX-1:5
LIN
1:1o(2+1)2d
2:1o(3+1)3d
<?xml version="1.0" encoding="UTF-8"?>
<sugar version="1.0">
<residues>
<basetype id="1" anomer="b" superclass="hex" ringStart="1" ringEnd="5" name="b-dgal-HEX-1:5">
<stemtype id="1" type="dgal" />
</basetype>
<basetype id="2" anomer="a" superclass="hex" ringStart="1" ringEnd="5" name="a-lgal-HEX-1:5|6:d">
<stemtype id="1" type="lgal" />
<modification type="d" pos_one="6" />
</basetype>
<basetype id="3" anomer="a" superclass="hex" ringStart="1" ringEnd="5" name="a-dgal-HEX-1:5">
<stemtype id="1" type="dgal" />
</basetype>
</residues>
<linkages>
<connection id="1" parent="1" child="2">
<linkage id="1" parentType="o" childType="d">
<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>
</sugar>
3D Structure Model1 - 5 of 10 entries with matching glycan part
Structure entry #368:
a-D-Galp-(1-3)+
|
b-D-Galp-(1-9)-9-hydroxy-Nonanoate-(1-1)-Methyl
|
a-L-Fucp-(1-2)+
 |
 13C: 1 |
 |
 : 5 |
 |
Taxons: 1 |
Structure entry #3986:
a-D-Galp-(1-3)+
|
b-D-Galp-(1-O)-<BSA>
|
a-L-Fucp-(1-2)+
|
 |
|
: 1 |
|
Taxons |
Structure entry #6548:
a-D-Galp-(1-3)+
|
b-D-Galp-(1-1)-Methyl
|
a-L-Fucp-(1-2)+
|
|
|
: 4 |
|
Taxons |
Structure entry #7252:
a-D-Galp-(1-3)+
|
b-D-Galp-(1-4)-Asn
|
a-L-Fucp-(1-2)+
 |
|
|
: 1 |
|
Taxons: 1 |
Structure entry #8623:
a-D-Galp-(1-3)+
|
b-D-Galp-(1-O)-<ethylene glycol mono(1,3-dioxolan-2-yl)ethyl ether>
|
a-L-Fucp-(1-2)+
|
|
|
: 1 |
|
Taxons |
| Chemical Formula: | C18H32O15 | #C | #H | #O | |
| Molec. Weight: | 488 | 18 | 32 | 15 | |
| # Atoms: | 65 | ||||
| # Residues: | 3 | ||||
| # Heavy Atoms: | 33 | ||||
Superclasses:
|
Residues:
|
||||||||||||||
NMR Proton Chemical Shift Info| MHz | 0 | ||||||
| Temperature | 70 | ||||||
| Solvent | D2O | ||||||
| Residue | Linkage | Proton | PPM | JFrom | JTo | Hz | Note |
| B-D-GALP | H1 | 4.720 | note | ||||
| B-D-GALP | H2 | 3.790 | note | ||||
| B-D-GALP | H3 | 3.960 | note | ||||
| B-D-GALP | H4 | 4.260 | note | ||||
| B-D-GALP | H5 | 3.690 | note | ||||
| B-D-GALP | H6 a | 3.770 | note | ||||
| B-D-GALP | H6 b | 3.770 | note | ||||
| A-L-FUCP | 2 | H1 | 5.260 | note | |||
| A-L-FUCP | 2 | H2 | 3.800 | note | |||
| A-L-FUCP | 2 | H3 | 3.820 | note | |||
| A-L-FUCP | 2 | H4 | 3.810 | note | |||
| A-L-FUCP | 2 | H5 | 4.400 | note | |||
| A-L-FUCP | 2 | H6 | 1.210 | note | |||
| A-D-GALP | 3 | H1 | 5.250 | note | |||
| A-D-GALP | 3 | H2 | 3.890 | note | |||
| A-D-GALP | 3 | H3 | 3.890 | note | |||
| A-D-GALP | 3 | H4 | 4.010 | note | |||
| A-D-GALP | 3 | H5 | 4.220 | note | |||
| A-D-GALP | 3 | H6 a | 3.750 | note | |||
| A-D-GALP | 3 | H6 b | 3.750 | note | |||
NMR Carbon Chemical Shift Info| MHz | 0 | ||||||
| Temperature | 70 | ||||||
| Solvent | D2O | ||||||
| Residue | Linkage | Carbon | PPM | JFrom | JTo | Hz | Note |
| B-D-GALP | C1 | 96.21 | note | ||||
| B-D-GALP | C2 | 75.89 | note | ||||
| B-D-GALP | C3 | 77.57 | note | ||||
| B-D-GALP | C4 | 64.70 | note | ||||
| B-D-GALP | C5 | 75.42 | note | ||||
| B-D-GALP | C6 | 61.89 | note | ||||
| A-L-FUCP | 2 | C1 | 99.74 | note | |||
| A-L-FUCP | 2 | C2 | 68.87 | note | |||
| A-L-FUCP | 2 | C3 | 70.66 | note | |||
| A-L-FUCP | 2 | C4 | 72.86 | note | |||
| A-L-FUCP | 2 | C5 | 67.70 | note | |||
| A-L-FUCP | 2 | C6 | 15.96 | note | |||
| A-D-GALP | 3 | C1 | 94.43 | note | |||
| A-D-GALP | 3 | C2 | 69.00 | note | |||
| A-D-GALP | 3 | C3 | 70.24 | note | |||
| A-D-GALP | 3 | C4 | 70.38 | note | |||
| A-D-GALP | 3 | C5 | 72.04 | note | |||
| A-D-GALP | 3 | C6 | 62.11 | note | |||
PDB references: 121 - 5 of 12 PDB entries
PDB ID 6n1b:
Crystal structure of an N-acetylgalactosamine deacetylase from F. plautii in complex with blood group B trisaccharide
Description: Carbohydrate-binding protein
Source: Flavonifractor plautii
Experimental method: X-RAY DIFFRACTION
Resolution: 1.3Å
Release date: 2019-06-12
Entry features 1 distinct glycan structures [1 instances].
PDB ID 5d61:
MOA-Z-VAD-fmk complex, direct orientation
Description: Agglutinin, Z-VAD-fmk
Source: Marasmius oreades
Experimental method: X-RAY DIFFRACTION
Resolution: 1.6Å
Release date: 2016-03-02
Entry features 2 distinct glycan structures [3 instances].
PDB ID 5d62:
MOA-Z-VAD-fmk complex, inverted orientation
Description: Agglutinin, Z-VAD-fmk
Source: Marasmius oreades
Experimental method: X-RAY DIFFRACTION
Resolution: 1.7Å
Release date: 2016-03-02
Entry features 2 distinct glycan structures [3 instances].
PDB ID 5d63:
MOA-Z-VAD-fmk inhibitor complex, direct/inverted dual orientation
Description: Agglutinin, Z-VAD-fmk
Source: Marasmius oreades
Experimental method: X-RAY DIFFRACTION
Resolution: 1.65Å
Release date: 2016-03-02
Entry features 2 distinct glycan structures [3 instances].
PDB ID 3q38:
Crystal structure of P domain from norwalk virus strain vietnam 026 in complex with HBGA type B (triglycan)
Description: Capsid protein
Source: Norwalk virus
Experimental method: X-RAY DIFFRACTION
Resolution: 1.28Å
Release date: 2011-05-11
Entry features 1 distinct glycan structures [1 instances].
Literature references: 171 - 5 of 17 literature references
Reference #21971
Yamamoto F
A historical overview of advances in molecular genetic/genomic studies of the ABO blood group system.
Published 2022 in Glycoconj J, 39: 207-218
Reference contains 3 structures
Reference #21704
Mateoiu C; Vitiazeva V; Kristjansdottir B; Weijdegård B; Örnros J; Gallini R; Kamali-Moghaddam M; Sundfeldt K; Karlsson NG
Analysis of blood group antigens on MUC5AC in mucinous ovarian cancer tissues using in situ proximity ligation assay.
Published 2021 in Glycobiology, 31: 1464-1471
Reference contains 3 structures
Reference #22000
Sojitra M; Sarkar S; Maghera J; Rodrigues E; Carpenter EJ; Seth S; Ferrer Vinals D; Bennett NJ; Reddy R; Khalil A; Xue X; Bell MR; Zheng RB; Zhang P; Nycholat C; Bailey JJ; Ling CC; Lowary TL; Paulson JC; Macauley MS; Derda R
Genetically encoded multivalent liquid glycan array displayed on M13 bacteriophage.
Published 2021 in Nat Chem Biol, 17: 806-816
Reference contains 65 structures
Reference #21626
Rubén LC; Laura MR; Almudena FB; Emilio GM
Glycan array analysis of Pholiota squarrosa lectin and other fucose-oriented lectins.
Published 2021 in Glycobiology, 31: 459-476
Reference contains 10 structures
Reference #21847
Lardone RD; Garay YC; Parodi P; de la Fuente S; Angeloni G; Bravo EO; Schmider AK; Irazoqui FJ
How glycobiology can help us treat and beat the COVID-19 pandemic.
Published 2021 in J Biol Chem, 296: 100375
Reference contains 11 structures
1 - 5 of 8 literature references from PDB entries
Reference #20280
Cordara G; Manna D; Krengel U
A family of papain-like fungal chimerolectins with distinct Ca2+-dependent activation mechanism.
Published 2017 in Biochemistry, :
Reference #19476
Cordara G; van Eerde A; Grahn EM; Winter HC; Goldstein IJ; Krengel U
An Unusual Member of the Papain Superfamily: Mapping the Catalytic Cleft of the Marasmius oreades agglutinin (MOA) with a Caspase Inhibitor.
Published 2016 in PLoS ONE, 11: e0149407
Reference #17713
Feinberg H; Taylor ME; Razi N; McBride R; Knirel YA; Graham SA; Drickamer K; Weis WI
Structural basis for langerin recognition of diverse pathogen and mammalian glycans through a single binding site.
Published 2011 in J. Mol. Biol., 405: 1027-39
Reference #17837
Hansman GS; Biertümpfel C; Georgiev I; McLellan JS; Chen L; Zhou T; Katayama K; Kwong PD
Crystal structures of GII.10 and GII.12 norovirus protruding domains in complex with histo-blood group antigens reveal details for a potential site of vulnerability.
Published 2011 in J. Virol., 85: 6687-701
Reference #17302
Grahn EM; Winter HC; Tateno H; Goldstein IJ; Krengel U
Structural characterization of a lectin from the mushroom Marasmius oreades in complex with the blood group B trisaccharide and calcium.
Published 2009 in J. Mol. Biol., 390: 457-66
| NCBI Taxonomy ID | Scientific Name |
| 9606 | Homo sapiens |
Consortium for Functional Glycomics (CFG):
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