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Glycosciences.DB structure entry #7997:

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Format: CarbBank LINUCS GlycoCT_condensed GlycoCT_xml


 b-D-Galp-(1-4)-b-D-GlcpNAc-(1-3)-b-D-Galp-(1-4)-b-D-Glcp


RES
1b:b-dglc-HEX-1:5
2b:b-dgal-HEX-1:5
3b:b-dglc-HEX-1:5
4s:n-acetyl
5b:b-dgal-HEX-1:5
LIN
1:1o(4+1)2d
2:2o(3+1)3d
3:3d(2+1)4n
4:3o(4+1)5d


<?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-dglc-HEX-1:5">
 <stemtype id="1" type="dglc" />
 </basetype>
 <basetype id="2" anomer="b" superclass="hex" ringStart="1" ringEnd="5" name="b-dgal-HEX-1:5">
 <stemtype id="1" type="dgal" />
 </basetype>
 <basetype id="3" anomer="b" superclass="hex" ringStart="1" ringEnd="5" name="b-dglc-HEX-1:5">
 <stemtype id="1" type="dglc" />
 </basetype>
 <substituent id="4" name="n-acetyl" />
 <basetype id="5" 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="o" childType="d">
 <parent pos="4" />
 <child pos="1" />
 </linkage>
 </connection>
 <connection id="2" parent="2" child="3">
 <linkage id="2" parentType="o" childType="d">
 <parent pos="3" />
 <child pos="1" />
 </linkage>
 </connection>
 <connection id="3" parent="3" child="4">
 <linkage id="3" parentType="d" childType="n">
 <parent pos="2" />
 <child pos="1" />
 </linkage>
 </connection>
 <connection id="4" parent="3" child="5">
 <linkage id="4" parentType="o" childType="d">
 <parent pos="4" />
 <child pos="1" />
 </linkage>
 </connection>
 </linkages>
 </sugar>

SNFG-style Graphics

3D Structure Model

download coordinates

Corresponding entries: 4

1 - 4 of 4 entries with matching glycan part

Structure entry #686: Paragloboside / Neolactotetraosylceramide

b-D-Galp-(1-4)-b-D-GlcpNAc-(1-3)-b-D-Galp-(1-4)-b-D-Glcp-(1-1)-Ceramide

no 3d model

no NMR spectra

literature references

no GlycoMaps

Structure entry #7513:

b-D-Galp-(1-4)-b-D-GlcpNAc-(1-3)-b-D-Galp-(1-4)-b-D-Glcp-(1-1)-Methyl

no 3d model

no NMR spectra

literature references

no GlycoMaps

Taxons

Structure entry #17901:

b-D-Galp-(1-4)-b-D-GlcpNAc-(1-3)-b-D-Galp-(1-4)-b-D-Glcp-(1-O)-<Trimethylsilyl>

no 3d model

no NMR spectra

literature references

no GlycoMaps

Taxons

Structure entry #22184:

b-D-Galp-(1-4)-b-D-GlcpNAc-(1-3)-b-D-Galp-(1-4)-b-D-Glcp-(1-9)-9-hydroxy-Nonanoate-(1-1)-Methyl

no 3d model

no NMR spectra

literature references

no GlycoMaps

Taxons

GSL core, neolacto-type (Show) (Search Database)

General Structure Data

Chemical Formula:	C₂₆H₄₅N₁O₂₁		#C	#H	#O	#N
Molec. Weight:	707		26	45	21	1
# Atoms:	93
# Residues:	4
# Heavy Atoms:	48

Superclasses:

Hex
Hex	3
HexNAc	1

Residues:

Residue	Count
B-D-GALP	2
B-D-GLCP	1
B-D-GLCPNAC	1

PDB references: 6

1 - 5 of 6 PDB entries

PDB ID 5t7i: Crystal structure of galectin-8N in complex with LNnT

Description: Galectin-8

Source: Homo sapiens

Experimental method: X-RAY DIFFRACTION

Resolution: 2Å

Release date: 2017-01-04

Entry features 1 distinct glycan structures [1 instances].

PDB ID 4yg0: Structural basis of glycan recognition in neonate-specific rotaviruses

Description: Outer capsid protein VP4

Source: Human rotavirus A

Experimental method: X-RAY DIFFRACTION

Resolution: 1.285Å

Release date: 2015-09-30

Entry features 1 distinct glycan structures [1 instances].

PDB ID 4yg6: Structural basis of glycan recognition in neonate-specific rotaviruses

Description: P[11] human rotavirus N155 VP8*

Source: Rotavirus A

Experimental method: X-RAY DIFFRACTION

Resolution: 1.46Å

Release date: 2015-09-30

Entry features 3 distinct glycan structures [3 instances].

PDB ID 4ylz: Crystal structure of the human galectin-4 C-terminal carbohydrate recognition domain in complex with lacto-N-neotetraose (LNnT)

Description: Human galectin-4 C-terminal carbohydrate recognition domain

Source: Homo sapiens

Experimental method: X-RAY DIFFRACTION

Resolution: 2.1Å

Release date: 2015-07-01

Entry features 1 distinct glycan structures [4 instances].

PDB ID 4lbk: Crystal structure of Human galectin-3 CRD K176L mutant in complex with LNnT

Description: Galectin-3

Source: Homo sapiens

Experimental method: X-RAY DIFFRACTION

Resolution: 1.6Å

Release date: 2014-01-22

Entry features 1 distinct glycan structures [1 instances].

Literature references: 8

1 - 5 of 8 literature references

Reference #21727

Saha S; Coady A; Sasmal A; Kawanishi K; Choudhury B; Yu H; Sorensen RU; Inostroza J; Schoenhofen IC; Chen X; Münster-Kühnel A; Sato C; Kitajima K; Ram S; Nizet V; Varki A

Exploring the Impact of Ketodeoxynonulosonic Acid in Host-Pathogen Interactions Using Uptake and Surface Display by Nontypeable Haemophilus influenzae.

Published 2021 in mBio, 12:

Reference contains 10 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 #21814

Roderer D; Bröcker F; Sitsel O; Kaplonek P; Leidreiter F; Seeberger PH; Raunser S

Glycan-dependent cell adhesion mechanism of Tc toxins.

Published 2020 in Nat Commun, 11: 2694

Reference contains 13 structures

Reference #21327

Kitova EN; Han L; Vinals DF; Kitov PI; Derda R; Klassen JS

Influence of labeling on the glycan affinities and specificities of glycan-binding proteins. A case study involving a C-terminal fragment of human galectin-3.

Published 2020 in Glycobiology, 30: 49-57

Reference contains 5 structures

Reference #20916

Taylor ME; Snelling T; Smith DF; Drickamer K

Absence of a human ortholog of rodent Kupffer cell galactose-binding receptor encoded by the CLEC4f gene.

Published 2019 in Glycobiology, 29: 332-345

Reference contains 25 structures

Further literature references from PDB entries: 5

1 - 5 of 5 literature references from PDB entries

Reference #20139

Bohari MH; Yu X; Zick Y; Blanchard H

Structure-based rationale for differential recognition of lacto- and neolacto- series glycosphingolipids by the N-terminal domain of human galectin-8.

Published 2016 in Sci Rep, 6: 39556

Reference #19342

Hu L; Ramani S; Czako R; Sankaran B; Yu Y; Smith DF; Cummings RD; Estes MK; Venkataram Prasad BV

Structural basis of glycan specificity in neonate-specific bovine-human reassortant rotavirus.

Published 2015 in Nat Commun, 6: 8346

Reference #19228

Bum-Erdene K; Leffler H; Nilsson UJ; Blanchard H

Structural characterization of human galectin-4 C-terminal domain: elucidating the molecular basis for recognition of glycosphingolipids, sulfated saccharides and blood group antigens.

Published 2015 in FEBS J., 282: 3348-67

Reference #18747

Collins PM; Bum-Erdene K; Yu X; Blanchard H

Galectin-3 interactions with glycosphingolipids.

Published 2014 in J. Mol. Biol., 426: 1439-51

Reference #17427

Guardado-Calvo P; Llamas-Saiz AL; Fox GC; Glasgow JN; van Raaij MJ

Crystallization of the head and galectin-like domains of porcine adenovirus isolate NADC-1 fibre.

Published 2009 in Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun., 65: 1149-52

Consortium for Functional Glycomics (CFG):

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