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cv_carbohydrate.txt
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cv_carbohydrate.txt
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----------------------------------------------------------------------------
neXtProt
SIB - Swiss Institute of Bioinformatics and GeneBio SA
Geneva, Switzerland
----------------------------------------------------------------------------
Description: Control vocabulary to describe carbohydrate modification
File name: cv_carbohydrate.txt
Last update: 21-Mar-2017
----------------------------------------------------------------------------
The definition of the CV is provided in the following format:
--------- --------------------------- ----------------------
Line code Content Occurrence in an entry
--------- --------------------------- ----------------------
ID Identifier Once; starts a glycolysation entry
AC Accession (CVCA_xxxx) Once
DE Definition Once or more
MM Monoisotopic mass difference Optional, once.
DR Cross-reference to PTM Optional, once or more.
databases
KW X-ref to Swiss-Prot keyword Optional; once or more
// Terminator Once; ends an entry
AN Next free AC: CVCA_0036
__________________________________________________________________________
ID C-linked (Man)
AC CVCA_0001
DE A mannose covalently attached to a carbon on a tryptophan residue.
MM 162.052823
DR RESID; AA0217
DR PSI-MOD; 00222 [2'-alpha-mannosyl-L-tryptophan]
KW KW-0325:Glycoprotein.
//
ID N-linked (Fuc...)
AC CVCA_0035
DE A glycan that contains a fucose.
KW KW-0325:Glycoprotein.
//
ID N-linked (Glc) (glycation)
AC CVCA_0002
DE A glucose attached covalently without the controlling action of an
DE enzyme to the amino group of a lysine residue or on the protein N-
DE terminal residue.
SY N-linked (Glc) (glycation), alternate
MM 162.052823
DR PSI-MOD; 01065 [N-glucosyl (N terminus or N epsilon of Lysine)]
KW KW-0325:Glycoprotein.
//
ID N-linked (GlcNAc...)
AC CVCA_0003
DE An oligosaccharide covalently attached via the N-acetylglucosamine to
DE the amide nitrogen of an asparagine residue. All N-linked
DE oligosaccharides are bound to the asparagine through a pentasaccharide
DE core of two N-acetyglucosamine and three mannose residues to which the
DE additional sugars are attached. There are three types of mature N-
DE glycans: high mannose, hybrid and complex.
KW KW-0325:Glycoprotein.
//
ID N-linked (GlcNAc...) (complex)
AC CVCA_0004
DE Complex mature N-glycan. The oligosaccharides attached to the
DE pentasaccharide core of two N-acetyglucosamine and three mannose
DE residues are composed of different combinations of N-
DE acetylglucosamine, N-acetylgalactosamine, fucose, galactose and sialic
DE acid.
KW KW-0325:Glycoprotein.
//
ID N-linked (GlcNAc...) (high mannose)
AC CVCA_0005
DE High mannose mature N-glycan. The oligosaccharides attached to the
DE pentasaccharide core of two N-acetyglucosamine and three mannose
DE residues contain only mannoses.
KW KW-0325:Glycoprotein.
//
ID N-linked (GlcNAc...) (high mannose and complex)
AC CVCA_0006
DE The hybrid mature N-glycan is a mixture of high mannose and complex
DE type. One or two oligosaccharides of the complex type are linked to
DE one of the mannose residues of the pentasaccharide core of two N-
DE acetyglucosamine and three mannose residues, and one or two other
DE mannose are linked to the other mannose residue of the core.
KW KW-0325:Glycoprotein.
//
ID N-linked (GlcNAc...) (high mannose or hybrid)
AC CVCA_0032
DE N-linked (GlcNAc...) (high mannose and or hybrid)
KW KW-0325:Glycoprotein.
//
ID N-linked (GlcNAc...) (hybrid)
AC CVCA_0034
DE N-linked (GlcNAc...) (hybrid)
KW KW-0325:Glycoprotein.
//
ID N-linked (GlcNAc...) (keratan sulfate)
AC CVCA_0007
DE A keratan sulfate covalently attached via the N-acetylglucosamine of
DE the pentasaccharide core of two N-acetyglucosamine and three mannose
DE residues to the amide nitrogen of an asparagine residue. Also named
DE keratan sulfate type I. Keratan sulfate is a type of glycosaminoglycan
DE consisting of a linear polymer of the repeating disaccharide unit of
DE alpha-D-N-acetylglucosamine and beta-D-galactose that can be sulfated
DE at carbon position 6 of either or both saccharides.
KW KW-0325:Glycoprotein.
//
ID N-linked (GlcNAc...) (polylactosaminoglycan)
AC CVCA_0025
DE A polylactosaminoglycan covalently attached via the N-acetylglucosamine
DE of the pentasaccharide core of two N-acetyglucosamine and three mannose
DE residues to the amide nitrogen of an asparagine residue.
DE Polylactosaminoglycans can be linear or branched. In the linear form the
DE N-acetyllactosamine units are linked by beta1–3 linkages, in the
DE branched formed the carbon 6 of some galactose residues are substituted
DE with additional N-acetyllactosamines.
KW KW-0325:Glycoprotein.
//
ID O-linked (Fuc)
AC CVCA_0008
DE A fucose covalently attached to the hydroxyl group of a serine or a
DE threonine residue.
MM 146.057909
DR PSI-MOD; 00614 [fucosylated]
KW KW-0325:Glycoprotein.
//
ID O-linked (Fuc...)
AC CVCA_0009
DE A glycan that contains a fucose which is covalently attached to the
DE hydroxyl group of a serine or a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (Gal...)
AC CVCA_0010
DE A glycan that contains a galactose which is covalently attached to the
DE hydroxyl group of a serine or a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (GalNAc)
AC CVCA_0011
DE An N-acetylgalactosamine covalently attached to the hydroxyl group of
DE a serine or a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (GalNAc...)
AC CVCA_0012
DE A glycan that contains an N-acetylgalactosamine which is covalently
DE attached to the hydroxyl group of a serine or a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (Glc...)
AC CVCA_0013
DE A glycan that contains a glucose which is covalently attached to the
DE hydroxyl group of a serine or a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (GlcA)
AC CVCA_0014
DE A glucuronic acid covalently attached to the hydroxyl group of a
DE serine or a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (GlcNAc)
AC CVCA_0015
DE An N-acetylglucosamine covalently attached to the hydroxyl group of a
DE serine or a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (GlcNAc...)
AC CVCA_0024
DE A glycan that contains an N-acetylglucosamine which is covalently
DE attached to the hydroxyl group of a serine or a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (GlcNAc6P)
AC CVCA_0031
DE An N-acetylglucosamine-6-phosphate covalently attached to the hydroxyl
DE group of a serine or a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (Hex)
AC CVCA_0029
DE A hexosamine covalently attached to the hydroxyl group of a serine or
DE a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (Hex...)
AC CVCA_0028
DE A glycan that contains a hexosamine which is covalently attached to
DE the hydroxyl group of a serine or a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (HexNAc...)
AC CVCA_0016
DE A glycan that contains an N-acetyl hexosamine which is covalently
DE attached to the hydroxyl group of a serine or a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (Man6P...)
AC CVCA_0027
DE A glycan that contains a manose-6-phosphate which is covalently
DE attached to the hydroxyl group of a serine or a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (Xyl...)
AC CVCA_0033
DE A glycan that contains a xylose which is covalently attached to the
DE hydroxyl group of a serine or a threonine residue.
KW KW-0325:Glycoprotein.
//
ID O-linked (Xyl...) (chondroitin sulfate)
AC CVCA_0017
DE A chondroitin sulfate linked to a serine residue via the
DE tetrasaccharide formed by xylose, two galactoses and a glucuronic
DE acid. Chondroitin sulfate is a sulfated glycosaminoglycan with the
DE linear chain of the disaccharide unit of beta-D-galactosamine and
DE beta-D-glucuronic acid.
KW KW-0325:Glycoprotein.
//
ID O-linked (Xyl...) (dermatan sulfate)
AC CVCA_0018
DE A dermatan sulfate linked to a serine residue via the tetrasaccharide
DE formed by xylose, two galactoses and a glucuronic acid. Dermatan
DE sulfate is a sulfated glycosaminoglycan with the repeating
DE disaccharide unit of beta-D-galactosamine and L-iduronic acid.
KW KW-0325:Glycoprotein.
//
ID O-linked (Xyl...) (glycosaminoglycan)
AC CVCA_0019
DE A glycosaminoglycan linked to a serine residue via the tetrasaccharide
DE formed by xylose, two galactoses and a glucuronic acid.
DE Glycosaminoglycans or mucopolysaccharides are long unbranched
DE polysaccharides consisting of repeating disaccharide units that can
DE contain sulfates at various positions. The repeating unit consists of
DE a hexosamine (beta-D-N-acetylgalactosamine or alpha-D-N-
DE acetylglucosamine) and a hexuronic sugar (beta-D-glucuronic acid acid
DE or alpha-L-iduronic acid) or a beta-D-galactose. Chondroitin sulfate,
DE dermatan sulfate, heparan sulfate and keratan sulfate are
DE glycosaminoglycans.
KW KW-0325:Glycoprotein.
//
ID O-linked (Xyl...) (heparan sulfate)
AC CVCA_0020
DE A heparan sulfate linked to a serine residue via the tetrasaccharide
DE formed by xylose, two galactoses and a glucuronic acid. Heparan
DE sulfate is a sulfated glycosaminoglycan with repeating disaccharide
DE unit of alpha-D-glucosamine and uronic acid, the latter being either
DE beta-D-glucuronic acid or alpha-L-iduronic acid. Sulfation
DE modification may be performed at various positions.
KW KW-0325:Glycoprotein.
//
ID O-linked (Xyl...) (keratan sulfate)
AC CVCA_0026
DE O-linked (Xyl...) (keratan sulfate)
KW KW-0325:Glycoprotein.
//
ID S-linked (Gal...)
AC CVCA_0021
DE A glycan that contains a galactose covalently attached to the sulfur
DE atom of a cysteine residue.
KW KW-0325:Glycoprotein.
//
ID S-linked (Glc...)
AC CVCA_0022
DE A glycan that contains a glucose covalently attached to the sulfur
DE atom of a cysteine residue.
KW KW-0325:Glycoprotein.
//
ID S-linked (Hex...)
AC CVCA_0023
DE A glycan that contains a hexose covalently attached to the sulfur atom
DE of a cysteine residue.
KW KW-0325:Glycoprotein.
//