Glycosciences.de - Glycosciences.DB entry 2677

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Glycosciences.DB structure entry #2677:

Format: CarbBank LINUCS GlycoCT_condensed GlycoCT_xml


 b-D-Galp-(1-3)-b-D-GalpNAc-(1-4)+
                                 |
                            b-D-Galp-(1-4)-b-D-Glcp
                                 |
                a-D-Neup5Ac-(2-3)+


RES
1b:b-dglc-HEX-1:5
2b:b-dgal-HEX-1:5
3b:a-dgro-dgal-NON-2:6|1:a|2:keto|3:d
4s:n-acetyl
5b:b-dgal-HEX-1:5
6s:n-acetyl
7b:b-dgal-HEX-1:5
LIN
1:1o(4+1)2d
2:2o(3+2)3d
3:3d(5+1)4n
4:2o(4+1)5d
5:5d(2+1)6n
6:5o(3+1)7d


<?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="a" superclass="non" ringStart="2" ringEnd="6" name="a-dgro-dgal-NON-2:6|1:a|2:keto|3:d">
 <stemtype id="1" type="dgro" />
 <stemtype id="2" type="dgal" />
 <modification type="a" pos_one="1" />
 <modification type="keto" pos_one="2" />
 <modification type="d" pos_one="3" />
 </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>
 <substituent id="6" name="n-acetyl" />
 <basetype id="7" 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="2" />
 </linkage>
 </connection>
 <connection id="3" parent="3" child="4">
 <linkage id="3" parentType="d" childType="n">
 <parent pos="5" />
 <child pos="1" />
 </linkage>
 </connection>
 <connection id="4" parent="2" 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="d" childType="n">
 <parent pos="2" />
 <child pos="1" />
 </linkage>
 </connection>
 <connection id="6" parent="5" child="7">
 <linkage id="6" parentType="o" childType="d">
 <parent pos="3" />
 <child pos="1" />
 </linkage>
 </connection>
 </linkages>
 </sugar>

download coordinates

Corresponding entries: 22

1 - 5 of 22 entries with matching glycan part

Structure entry #142: Glycosphingolipid GM1 / GM1a

b-D-Galp-(1-3)-b-D-GalpNAc-(1-4)+ | b-D-Galp-(1-4)-b-D-Glcp-(1-1)-Ceramide | a-D-Neup5Ac-(2-3)+

Structure entry #765:

b-D-Galp-(1-3)-b-D-GalpNAc-(1-4)+ | b-D-Galp-(1-4)-b-D-Glcp-(1-1)-<2-D-erythro-2-acetamide-octadec-4E-en-1,3-diol> | a-D-Neup5Ac-(2-3)+

: 2

Taxons

Structure entry #766:

b-D-Galp-(1-3)-b-D-GalpNAc-(1-4)+ | b-D-Galp-(1-4)-b-D-Glcp-(1-1)-sphingosine-(2-1)-<2-chloroacetate> | a-D-Neup5Ac-(2-3)+

: 5

Taxons

Structure entry #2875:

b-D-Galp-(1-3)-b-D-GalpNAc-(1-4)+ | b-D-Galp-(1-4)-b-D-Glcp-(1-1)-hexyl | a-D-Neup5Ac-(2-3)+

: 1

Taxons

Structure entry #3946:

b-D-Galp-(1-3)-b-D-GalpNAc-(1-4)+ | b-D-Galp-(1-4)-b-D-Glcp-(1-1)-2R-amino-Octadec-4E-en-1,3S-diol | a-D-Neup5Ac-(2-3)+

GM1a (Show) (Search Database)
GSL core, ganglio-type (Show) (Search Database)

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General Structure Data

Chemical Formula:	C₃₇H₆₂N₂O₂₉	#C	#H	#O	#N
Molec. Weight:	998	37	62	29	2
# Atoms:	130
# Residues:	5
# Heavy Atoms:	68

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Composition

Superclasses:

Neu		Hex
NeuAc	1	Hex	3
		HexNAc	1

Residues:

Residue	Count
A-D-NEUP5AC	1
B-D-GALP	2
B-D-GALPNAC	1
B-D-GLCP	1

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PDB references: 15

1 - 5 of 15 PDB entries

PDB ID 6wlw: The Vo region of human V-ATPase in state 1 (focused refinement)

Description: V-type proton ATPase 116 kDa subunit a isoform 1, V-type proton ATPase subunit S1, Renin receptor, V-type proton ATPase 21 kDa proteolipid subunit, V-type proton ATPase 16 kDa proteolipid subunit, V-type proton ATPase subunit d 1, V-type proton ATPase sub

Source: Homo sapiens

Experimental method: ELECTRON MICROSCOPY

Release date: 2020-11-11

Entry features 6 distinct glycan structures [9 instances].

PDB ID 6wm2: Human V-ATPase in state 1 with SidK and ADP

Description: V-type proton ATPase 116 kDa subunit a isoform 1, V-type proton ATPase subunit C 1, V-type proton ATPase subunit E 1, V-type proton ATPase subunit G 1, V-type proton ATPase subunit e 1, Ribonuclease kappa (E.C.3.1.-.-), V-type proton ATPase subunit H, V-t

Source: Homo sapiens, Legionella pneumophila

Experimental method: ELECTRON MICROSCOPY

Release date: 2020-11-11

Entry features 6 distinct glycan structures [10 instances].

PDB ID 5n0c: Crystal structure of the tetanus neurotoxin in complex with GM1a

Description: Tetanus toxin (E.C.3.4.24.68)

Source: Clostridium tetani

Experimental method: X-RAY DIFFRACTION

Resolution: 2.6Å

Release date: 2017-06-21

Entry features 1 distinct glycan structures [2 instances].

PDB ID 4zh1: Complement factor H in complex with the GM1 glycan