AtomSets/Carbohydrate

'carbohydrate' atom set

(Updated to Jmol 16.1.9)

Atoms are included in this set according to the name of the residue (group) they belong to:

Alphabetic

[A2G] = N-acetyl-alpha-D-galactosamine = GalNAc = 2-(acetylamino)-2-deoxy-alpha-D-galactopyranose (see also NGA)

[AFL] = <fucose> obsolete, replaced with FUL

[AGC] = <glucose> obsolete, replaced with GLC

[AHR] = alpha-L-arabinofuranose

[ALL] = beta-D-allopyranose

[AMU] = N-acetyl-beta-muramic acid

[ARA] = alpha-L-arabinopyranose

[ARB] = beta-L-arabinopyranose

[BDF] = beta-D-fructopyranose (see also FRU)

[BDR] = beta-D-ribofuranose

[BGC] = beta-D-glucopyranose (see also GLC)

[BMA] = beta-D-mannopyranose (see also MAN)

[CBI] = cellobiose

[CT3] = beta-cellotriose

[CTR] = cellotriose

[CTT] = cellotetraose

[FCA] = alpha-D-fucose (see also FCB, FUC, FUL)

[FCB] = beta-D-fucose (see also FCA, FUC, FUL)

[FRU] = beta-D-fructofuranose (see also BDF)

[FUC] = alpha-L-fucose (see also FCA, FCB, FUL)

[FUL] = beta-L-fucose (see also FCA, FCB, FUC)

[GAL] = beta-D-galactopyranose (see also GLA)

[GCU] = alpha-D-glucopyranuronic acid (glucuronic acid)

[GLA] = alpha-D-galactopyranose (see also GAL)

[GLB] = <galactose> obsolete, replaced with GAL

[GLC] = alpha-D-glucopyranose (see also BGC)

[GUP] = alpha-L-gulopyranose

[GXL] = alpha-L-galactopyranose

[LAT] = beta-lactose

[LBT] = alpha-lactose

[LXC] = beta-L-xylopyranose

[MAB] = mannobiose

[MAL] = maltose

[MAN] = alpha-D-mannopyranose (see also BMA)

[MLR] = maltotriose

[MTL] = D-mannitol

[MTT] = maltotetraose

[NAG] = N-acetyl-beta-D-glucosamine = β-GlcNAc = 2-(acetylamino)-2-deoxy-beta-D-glucopyranose) (see also NDG)

[NAN] = <sialic> obsolete, replaced with SIA

[NDG] = N-acetyl-alpha-D-glucosamine = α-GlcNAc = 2-(acetylamino)-2-deoxy-alpha-D-glucopyranose) (see also NAG)

[NGA] = N-acetyl-beta-D-galactosamine = GalNAc = 2-(acetylamino)-2-deoxy-beta-D-galactopyranose (see also A2G)

[RAA] = <rhamnose> obsolete, replaced with RAM

[RAM] = alpha-L-rhamnose

[RHA] = 6-deoxy-mannose-1'-phosphate

[RIB] = alpha-D-ribofuranose

[RIP] = beta-D-ribopyranose

[SIA] = 5-N-acetyl-alpha-D-neuraminic acid (see also SLB)

[SLB] = 5-N-acetyl-beta-D-neuraminic acid (see also SIA)

[SOE] = α-L-sorbopyranose

[SOL] = L-sorbose

[SOR] = D-glucitol = D-sorbitol

[SUC] = sucrose

[TRE] = trehalose

[XYL] = D-xylitol

[XYP] = beta-D-xylopyranose

[XYS] = alpha-D-xylopyranose

Cathegorized

	linear	pyranose	furanose
glucose		α-D-Glcp [GLC]
		β-D-Glcp [BGC]
fructose		β-D-Frup [BDF]	β-D-Fruf [FRU]
galactose		α-D-Galp [GLA]
		β-D-Galp [GAL]
		α-L-Galp [GXL]
mannose		α-D-Manp [MAN]
		β-D-Manp [BMA]
ribose			α-D-Ribf [RIB]
		β-D-Ribp [RIP]	β-D-Ribf [BDR]
fucose		α-D-Fucp [FCA]
		β-D-Fucp [FCB]
		α-L-Fucp [FUC]
		β-L-Fucp [FUL]
xylose		α-D-Xylp [XYS]
		β-D-Xylp [XYP]
		β-L-Xylp [LXC]
arabinose		α-L-Arap [ARA]	α-L-Araf [AHR]
		β-L-Arap [ARB]
gulose		α-L-Gulp [GUP]
rhamnose		α-L-Rhap [RAM]
sorbose	L-sorbose [SOL]
		α-L-sorbopyranose [SOE]
allose		β-D-allopyranose [ALL]

Amino sugars

[NDG] = α-GlcNAc = N-acetyl-α-D-glucosamine = 2-(acetylamino)-2-deoxy-α-D-glucopyranose

[NAG] = β-GlcNAc = N-acetyl-β-D-glucosamine = 2-(acetylamino)-2-deoxy-β-D-glucopyranose

[A2G] = α-GalNAc = N-acetyl-α-D-galactosamine = 2-(acetylamino)-2-deoxy-α-D-galactopyranose

[NGA] = β-GalNAc = N-acetyl-β-D-galactosamine = 2-(acetylamino)-2-deoxy-β-D-galactopyranose

Sugar alcohols

[MTL] = D-mannitol

[SOR] = D-glucitol = D-sorbitol

[XYL] = D-xylitol

Sugar acids

[GCU] = D-glucuronic acid = α-D-glucopyranuronic acid

[RHA] = 6-deoxy-mannose-1'-phosphate

[SIA] = α-NeuNAc = 5-N-acetyl-α-D-neuraminic acid

[SLB] = β-NeuNAc = 5-N-acetyl-β-D-neuraminic acid

[AMU] = N-acetyl-β-muramic acid

Disaccharides

[MAL] = maltose = [α-D-Glc_p(1->4)]₂

[CBI] = cellobiose = [β-D-Glc_p(1->4)]₂

[TRE] = trehalose = α-D-Glc_p(1->1)α-D-Glc_p

[MAB] = mannobiose = [β-D-Man_p(1->4)]₂

[LBT] = alpha-lactose = β-D-Gal_p(1->4)α-D-Glc_p

[LAT] = beta-lactose = β-D-Gal_p(1->4)β-D-Glc_p

[SUC] = sucrose = β-D-Fru_f(2->1)α-D-Glc_p

Trisaccharides

[MLR] = maltotriose = [α-D-Glc_p(1->4)]₃

[CTR] = cellotriose = [β-D-Glc_p(1->4)]₂α-D-Glc_p

[CT3] = beta-cellotriose = [β-D-Glc_p(1->4)]₃

Tetrasaccharides

[MTT] = maltotetraose = [α-D-Glc_p(1->4)]₄

[CTT] = cellotetraose = [β-D-Glc_p(1->4)]₄

References

• RCSB PDB `Ligand Expo´ Chemical Component Search Tools
• [PDBe ligand dictionary https://www.ebi.ac.uk/pdbe-srv/pdbechem/]

Contributors

AngelHerraez