Talk:AtomSets

This page started by AngelHerraez, 5 June 2006. Initial clue came from Tim Driscoll, who pointed me to JmolConstants.java as the source for this information.

This needs an update and fixes (e.g. purine and pyrimidine seem to be based on structure, not IDs). Also, the current subsections are somewhat confusing. Maybe change them into

• by chemical structure
• by atom IDs

--AngelHerraez 18:05, 23 January 2010 (UTC)

Draft for 'carbohydrate' atom set

[AFL] = alpha-L-fucose (obsolete, replaced with FUL)
[AGC] = alpha-D-glucose (obsolete, replaced with GLC)
[AHR] = alpha-L-arabinofuranose
[ARA] = alpha-L-arabinopyranose
[ARB] = beta-L-arabinopyranose
[ASF] = 3-(butylsulfonyl)propanoic acid
[BDF] = beta-D-fructopyranose
[BDR] = beta-D-ribofuranose
[BGC]
[BMA] = beta-D-mannose
[CBI]
[CT3]
[CTR]
[CTT]
[FCA]
[FCB]
[FRU] = beta-D-fructofuranose
[FUC] = alpha-L-fucose
[FUL] = beta-L-fucose
[GAL] = beta-D-galactose
[GCU] = alpha-D-glucopyranuronic acid (glucuronic acid)
[GLA] = alpha-D-galactose
[GLB] = beta-D-galactose (obsolete, replaced with GAL)
[GLC] = beta-D-glucose
[GUP]
[LAT]
[LXC]
[MAB]
[MAL]
[MAN] = alpha-D-mannose
[MLR]
[MTL]
[MTT]
[NAG] = N-acetylglucosamine (GlcNAc)
[NAM]
[RAA]
[RAM]
[RHA]
[RIB] = alpha-D-ribofuranose
[RIP] = beta-D-ribopyranose
[SOR]
[SUC]
[TRE]
[XYL] = xylose
[XYP]
[XYS]

Not currently recognized by Jmol:

[A2G] = N-acetylgalactosamine (GalNAc)
[SIA] = 5-N-acetyl-alpha-D-neuraminic acid (NeuNAc, sialic)
[SLB] = 5-N-acetyl-beta-D-neuraminic acid

Contributors

AngelHerraez