Glycosciences.de - Glycosciences.DB entry 548

☰
- Add title
- Add keywords
- Add publication
- Leave comment

Glycosciences.DB structure entry #548: N-Glycan fragment GlcNAc2

■ Expand all ■ Collapse all

Format: CarbBank LINUCS GlycoCT_xml


 b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)-Asn


<?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>
 <substituent id="2" name="n-acetyl" />
 <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" />
 </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="4" />
 <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>
 </linkages>
 <aglyca>
 <historicalData>
 <entry id="0" name="ASN" toResidue="1">
 <linkage parentType="n" childType="x">
 <parent pos="4" />
 <child pos="1" />
 </linkage>
 </entry>
 </historicalData>
 </aglyca>
 </sugar>

SNFG-style Graphics

3D Structure Model

download coordinates

Corresponding entries: 18

1 - 5 of 18 entries with matching glycan part

Structure entry #552:

b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)-Asn-(1-2)-Phe-(1-2)-Thr

no NMR spectra

literature references

no GlycoMaps

Taxons

Structure entry #553:

b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)-Asn-(1-2)-Ala-(1-2)-Thr-(1-2)-Ala-(1-2)-Ser

no NMR spectra

literature references

no GlycoMaps

Taxons

Structure entry #596:

b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)+ | Asn-(1-2)-Lys-(1-2)-Thr-(1-2)-Leu-(1-2)-Met | Gly-(1-2)-Lys-(1-2)-Ala-(1-2)-Tyr-(1-2)-Thr-(1-2)-Ile-(1-2)-Phe-(1-2)+

no 3d model

no NMR spectra

literature references

no GlycoMaps

Taxons

Structure entry #1928:

b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-O)-dolichol-PP

no NMR spectra

literature references

no GlycoMaps

Taxons

Structure entry #2209:

b-D-GlcpNAc-(1-4)-b-D-GlcpNAc-(1-4)-Asn-(2-1)-Acetate

no 3d model

no NMR spectra

literature references

no GlycoMaps

Taxons

General Structure Data

Chemical Formula:	C₂₀H₃₄N₄O₁₂		#C	#H	#O	#N
Molec. Weight:	522		20	34	12	4
# Atoms:	70
# Residues:	3
# Heavy Atoms:	36

Superclasses:

Hex
HexNAc	2

Residues:

Residue	Count
ASN	1
B-D-GLCPNAC	2

PDB references: 4168

1 - 5 of 4168 PDB entries

PDB ID 7swx: SARS-CoV-2 Spike in complex with neutralizing Fab SARS2-57 (three down conformation)

Description:

Source: Severe acute respiratory syndrome coronavirus 2, Mus musculus

Experimental method: ELECTRON MICROSCOPY

Release date: 2022-11-23

Entry features 2 distinct glycan structures [53 instances].

PDB ID 7umm: H1 Solomon Islands 2006 hemagglutinin in complex with Ab109

Description:

Source: Influenza A virus (A/Solomon Islands/3/2006(H1N1)), MUS MUSCULUS

Experimental method: ELECTRON MICROSCOPY

Release date: 2022-11-23

Entry features 2 distinct glycan structures [9 instances].

PDB ID 7uny: Crystal structure of D2 nanobody in complex with PfCSS

Description:

Source: Plasmodium falciparum, Vicugna pacos

Experimental method: X-RAY DIFFRACTION

Resolution: 4.13Å

Release date: 2022-11-23

Entry features 3 distinct glycan structures [7 instances].

PDB ID 7unz: Crystal structure of H2 nanobody in complex with PfCSS

Description:

Source: Plasmodium falciparum, Vicugna pacos

Experimental method: X-RAY DIFFRACTION

Resolution: 2.03Å

Release date: 2022-11-23

Entry features 3 distinct glycan structures [10 instances].

PDB ID 7y6i: Cryo-EM structure of human sodium-chloride cotransporter

Description:

Source: HOMO SAPIENS

Experimental method: ELECTRON MICROSCOPY

Release date: 2022-11-23

Entry features 2 distinct glycan structures [4 instances].

Literature references: 6

1 - 5 of 6 literature references

Reference #21726

Tjondro HC; Ugonotti J; Kawahara R; Chatterjee S; Loke I; Chen S; Soltermann F; Hinneburg H; Parker BL; Venkatakrishnan V; Dieckmann R; Grant OC; Bylund J; Rodger A; Woods RJ; Karlsson-Bengtsson A; Struwe WB; Thaysen-Andersen M

Hyper-truncated Asn355- and Asn391-glycans modulate the activity of neutrophil granule myeloperoxidase.

Published 2021 in J Biol Chem, 296: 100144

Reference contains 20 structures

Reference #21166

Bello-Gil D; Audebert C; Olivera-Ardid S; Pérez-Cruz M; Even G; Khasbiullina N; Gantois N; Shilova N; Merlin S; Costa C; Bovin N; Mañez R

The Formation of Glycan-Specific Natural Antibodies Repertoire in GalT-KO Mice Is Determined by Gut Microbiota.

Published 2019 in Front Immunol, 10: 342

Reference contains 32 structures

Garg HG; Von dem Bruch K; Kunz H

Developments in the synthesis of glycopeptides containing glycosyl L-asparagine, L-serine, and L-threonine

Published 1994 in Adv Carbohydr Chem Biochem, 50: 277-310

Reference contains 59 structures

Reference #1363

Piskarev VE; Navratil J; Karaskova H; Bezouska K; Kocourek J

Interaction of egg-white glycoproteins and their oligosaccharides with the monomer and the hexamer of chicken liver lectin

Published 1990 in Biochem J, 270: 755-760

Reference contains 14 structures

Reference #3606

Nomoto H; Endo T; Inoue Y

Preparation and characterization of fragment glycoasparagines from ovalbumin glycopeptides: reference compounds for structural and biochemical studies of the oligo-mannose and hybrid types of carbohydrate chains of glycoproteins

Published 1982 in Carbohydr Res, 107: 91-101

Reference contains 9 structures

Further literature references from PDB entries: 1477

1 - 5 of 1477 literature references from PDB entries

Reference #22485

van Schooten J; Farokhi E; Schorcht A; van den Kerkhof TLGM; Gao H; van der Woude P; Burger JA; Meesters TGR; Bijl T; Ghalaiyini R; Turner HL; Dorning J; van Schaik BDC; van Kampen AHC; Labranche CC; Stanfield RL; Sok D; Montefiori DC; Burton DR; Seaman

Identification of IOMA-class neutralizing antibodies targeting the CD4-binding site on the HIV-1 envelope glycoprotein.

Published 2022 in Nat Commun, 13: 4515

Reference #22042

Cozier GE; Newby EC; Schwager SLU; Isaac RE; Sturrock ED; Acharya KR

Structural basis for the inhibition of human angiotensin-1 converting enzyme by fosinoprilat.

Published 2022 in FEBS J, :

Reference #22516

Milazzo FM; Chaves-Sanjuan A; Minenkova O; Santapaola D; Anastasi AM; Battistuzzi G; Chiapparino C; Rosi A; Merlo Pich E; Albertoni C; Marra E; Luberto L; Viollet C; Spagnoli LG; Riccio A; Rossi A; Santoro MG; Ballabio F; Paissoni C; Camilloni C; Bologne

Spike mutation resilient scFv76 antibody counteracts SARS-CoV-2 lung damage upon aerosol delivery.

Published 2022 in Mol Ther, :

Reference #22421

Maeda R; Fujita J; Konishi Y; Kazuma Y; Yamazaki H; Anzai I; Watanabe T; Yamaguchi K; Kasai K; Nagata K; Yamaoka Y; Miyakawa K; Ryo A; Shirakawa K; Sato K; Makino F; Matsuura Y; Inoue T; Imura A; Namba K; Takaori-Kondo A

A panel of nanobodies recognizing conserved hidden clefts of all SARS-CoV-2 spike variants including Omicron.

Published 2022 in Commun Biol, 5: 669

Reference #22523

Tanaka T; Ekimoto T; Nagatomo M; Neyazaki M; Shimoji E; Yamane T; Kanagawa S; Oi R; Mihara E; Takagi J; Akashi S; Ikeguchi M; Nogi T

Hybrid in vitro/in silico analysis of low-affinity protein-protein interactions that regulate signal transduction by Sema6D.

Published 2022 in Protein Sci, : e4452

NCBI Taxonomy ID	Scientific Name
9913	Bos taurus

Consortium for Functional Glycomics (CFG):

■ Expand all ■ Collapse all

© 2010-2016,2022 Justus-Liebig University Giessen, Institute of Veterinary Physiology and Biochemistry, Frankfurter Str. 100, 35392 Giessen, Germany
© 2017-2021 The Glycosciences.de crew
© 1997-2009 German Cancer Research Center Heidelberg, Central Spectroscopic Division, Im Neuenheimer Feld 280, 69120 Heidelberg, Germany
All rights reserved.