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Glycosciences.DB structure entry #232: M2F N-glycan linked to Asn


                                  a-L-Fucp-(1-6)+
                                                |
                                           b-D-GlcpNAc-(1-4)-Asn
                                                |
 a-D-Manp-(1-6)-b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)+


<?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" />
 <basetype id="5" anomer="b" superclass="hex" ringStart="1" ringEnd="5" name="b-dman-HEX-1:5">
 <stemtype id="1" type="dman" />
 </basetype>
 <basetype id="6" anomer="a" superclass="hex" ringStart="1" ringEnd="5" name="a-dman-HEX-1:5">
 <stemtype id="1" type="dman" />
 </basetype>
 <basetype id="7" 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>
 </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>
 <connection id="4" parent="3" child="5">
 <linkage id="4" parentType="o" childType="d">
 <parent pos="4" />
 <child pos="1" />
 </linkage>
 </connection>
 <connection id="5" parent="5" child="6">
 <linkage id="5" parentType="o" childType="d">
 <parent pos="6" />
 <child pos="1" />
 </linkage>
 </connection>
 <connection id="6" parent="1" child="7">
 <linkage id="6" parentType="o" childType="d">
 <parent pos="6" />
 <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>

download coordinates

Corresponding entries: 2

1 - 2 of 2 entries with matching glycan part

Structure entry #22945:

a-L-Fucp-(1-6)+ | b-D-GlcpNAc | a-D-Manp-(1-6)-b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)+

: 1

Taxons

Structure entry #24675:

a-L-Fucp-(1-6)+ | b-D-GlcpNAc | a-D-Manp-(1-3/6)-b-D-Manp-(1-4)-b-D-GlcpNAc-(1-4)+

: 1

Taxons

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General Structure Data

Chemical Formula:	C₃₈H₆₄N₄O₂₆	#C	#H	#O	#N
Molec. Weight:	992	38	64	26	4
# Atoms:	132
# Residues:	6
# Heavy Atoms:	68

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▶

Composition

Superclasses:

Hex
Hex	2
dHex	1
HexNAc	2

Residues:

Residue	Count
A-D-MANP	1
A-L-FUCP	1
ASN	1
B-D-GLCPNAC	2
B-D-MANP	1

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NMR Proton Chemical Shift Info

MHz	500
Temperature	300
Solvent	D2O
Residue	Linkage	Proton	PPM	JFrom	JTo	Hz	Note
Asn		HA	3.987			0
Asn		HB	2.871			0
Asn		HB'	2.934			0
b-D-GlcpNAc	4	H1	5.076			0
b-D-GlcpNAc	4	NAC	2.018			0
a-L-Fucp	6,4	H1	4.877			0
a-L-Fucp	6,4	H5	4.125			0
a-L-Fucp	6,4	CH3	1.209			0
b-D-GlcpNAc	4,4	H1	4.690			0
b-D-GlcpNAc	4,4	NAC	2.095			0
b-D-Manp	4,4,4	H1	4.770			0
b-D-Manp	4,4,4	H2	4.083			0
a-D-Manp	6,4,4,4	H1	4.916			0
a-D-Manp	6,4,4,4	H2	3.967			0

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PDB references: 37

1 - 5 of 37 PDB entries

PDB ID 7ni3: CRYSTAL STRUCTURE OF NATIVE HUMAN MYELOPEROXIDASE IN COMPLEX WITH CPD 3

Description:

Source: Homo sapiens

Experimental method: X-RAY DIFFRACTION

Resolution: 2.1Å

Release date: 2022-02-23

Entry features 2 distinct glycan structures [6 instances].

PDB ID 7a59: Crimean-Congo Hemorrhagic Fever Virus Envelope Glycoprotein Gc W1191H/W1197A/W1199A Mutant in Postfusion Conformation (Orthorhombic Crystal Form)

Description:

Source: Crimean-Congo hemorrhagic fever virus strain IbAr10200

Experimental method: X-RAY DIFFRACTION

Resolution: 2.197Å

Release date: 2021-10-06

Entry features 2 distinct glycan structures [3 instances].

PDB ID 7kx0: Crystal structure of the CD27:CD70 co-stimulatory complex

Description:

Source: Homo sapiens

Experimental method: X-RAY DIFFRACTION

Resolution: 2.69Å

Release date: 2021-09-08

Entry features 5 distinct glycan structures [9 instances].

PDB ID 7r8o: Structure of the SARS-CoV-2 S 6P trimer in complex with neutralizing antibody C548

Description:

Source: Severe acute respiratory syndrome coronavirus 2, Homo sapiens

Experimental method: ELECTRON MICROSCOPY

Release date: 2021-08-04

Entry features 5 distinct glycan structures [31 instances].

PDB ID 7orb: Crystal structure of the L452R mutant receptor binding domain of SARS-CoV-2 Spike glycoprotein in complex with COVOX-75 and COVOX-253 Fabs

Description:

Source: Severe acute respiratory syndrome coronavirus 2, HOMO SAPIENS

Experimental method: X-RAY DIFFRACTION

Resolution: 2.5Å

Release date: 2021-07-07

Entry features 4 distinct glycan structures [4 instances].