Category:LBS: Difference between revisions
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==Polysaccharide Chain==
==Polysaccharide Chain==


<center>
{| class="wikitable"
{| border="1" cellpadding="0" cellspacing="0" style="text-align:right;"
|+ Table 1. Common Categories
|+ Table 1. Glycosphingolipids and Phosphosphingolipids
|-
|-
! style="background:#efefef; text-align:center;" colspan="4"|
! Common Name || Sequence || LipidBank ID
Glycosphingolipids (Abbr. Z = {{LBS/FormatSugar|Galb1-4Glcb1-Cer}})
|- valign="top"
| <big>'''Ganglio''' [Gg] (??)</big><br/> GalNAc&beta;1-4R
| <big>'''Lacto'''  [Lc] (??)</big><br/> GlcNAc&beta;1-3R
| <big>'''Globo'''  [Gb] (??)</big><br/> Gal&alpha;1-4R
| <big>'''Root'''    [R] (??)</big><br/> derivatives of R
|-
|-
| style="vertical-align:top;" |<!---Ganglio--->
|colspan="3" style="background:#efefef; text-align:center"| By GalCer Synthase (EC 2.4.1.62)
{| class="collapsible" border="0" cellspacing="0"
{{#repeat:LBS/AbbrevTable/Row|1|
! style="background:#efefef; text-align:center;" | 3rd saccharide
Gala Gala1-4Galb1-Cer LBS.A2
Spirometo Galb1-4Glcb1-3Galb1-Cer LBS.AG5
}}
|-
|-
|  
|colspan="3" style="background:#efefef; text-align:center"| By GlcCer Synthase (EC 2.4.1.80)
{{#repeat:LBS/AbbrevTable/Row|1|
Ganglio GalNAcb1-4Galb1-4Glcb1-Cer LBS.Z8
Isoganglio GalNAcb1-3Galb1-4Glcb1-Cer LBS.Z7
Globo Gala1-4Galb1-4Glcb1-Cer LBS.Z2
Isoglobo Gala1-3Galb1-4Glcb1-Cer LBS.Z1
Lacto Galb1-3GlcNAcb1-3Galb1-4Glcb1-Cer LBS.ZDE
NeoLacto Galb1-4GlcNAcb1-3Galb1-4Glcb1-Cer LBS.ZDF
Muco Galb1-4Galb1-4Glcb1-Cer LBS.Z5
}}
|-
|-
|  
|colspan="3" style="background:#efefef; text-align:center"| With Mannose
{{#repeat:LBS/AbbrevTable/Row|1|
Arthro GlcNAcb1-3Manb1-4Glcb1-Cer LBS.Y
Mollu Mana1-3Manb1-4Glcb1-Cer LBS.GMM
}}
|}
|}
| style="vertical-align:top;" |<!---Lacto--->
{| class="collapsible" border="0" cellspacing="0"
! style="background:#efefef; text-align:center;" | 3rd saccharide
|-
| Lacto? ''GlcNAc&beta;1-3'' R
|-
| Lacto Gal&beta;1-3''GlcNAc&beta;1-3'' R
|-
| Neolacto Gal&beta;1-4''GlcNAc&beta;1-3'' R
|}
| style="vertical-align:top;" |<!---Globo--->
{| class="collapsible" border="0" cellspacing="0"
! style="background:#efefef; text-align:center;" | 3rd saccharide
|-
| [Gal&alpha;1-3]<sub>n</sub> ''Gal&alpha;1-4'' R
|-
| Gal&beta;1-3GalNAc&beta;1-3 ''Gal&alpha;1-4'' R
|-
| GlcNAc&beta;1-6GalNAc&beta;1-3 ''Gal&alpha;1-4'' R
|-
| GalNAc&beta;1-3 ''Gal&alpha;1-4'' R
|}
| style="vertical-align:top;" rowspan="3"|<!---Root--->
{| class="collapsible" border="0" cellspacing="0"
! style="background:#efefef; text-align:center;" | structure
|-
| hemato SAs (GM3,GD3,GT3)
|}
|-
| <big>'''Isoganglio''' [IG] (??)</big><br/> GalNAc&beta;1-3R
| <big>Lacto with &beta;1-6 [L6] (??)</big><br/> GlcNAc&beta;1-6R
| <big>'''Isoglobo''' [IB] (??)</big><br/> Gal&alpha;1-3R
|- style="vertical-align:top;"
| <big></big><br/>
{| style="float:right;"
|
|}
| <big>'''Lactoganglio''' [LG]</big><br/>
{| style="float:right;"
|-
|
GalNAc&beta;1-4<br/>
GlcNAc&beta;1-3
| R
|}
| <big>'''Isogloboganglio''' [BG]</big><br/>
{| style="float:right;"
|-
|
GalNAc&beta;1-4<br/>
Gal&alpha;1-3
| R
|}
|}
</center>
<center>
{| border="1" cellpadding="0" cellspacing="0" style="text-align:right;"
|+ Table 1. Glycosphingolipids and Phosphosphingolipids
|-
! style="background:#efefef; text-align:center;" colspan="4"|
Glycosphingolipids without ROOT
|- valign="top"
| <big>'''Glc-Cer''' (??)</big><br/> Glc&beta;1-Cer
| <big>'''Gal-Cer''' (??)</big><br/> Gal&beta;1-Cer
|-
| style="vertical-align:top;" |<!---Glc type--->
{| class="collapsible" border="0" cellspacing="0"
! style="background:#efefef; text-align:center;" | 2nd saccharide
|-
| Glc-Cer ''Glc&beta;1-Cer''
|-
| Arthro GlcNAc&beta;1-3Man&beta;1-4''Glc&beta;1-Cer''
|-
| Mollu Man&alpha;1-3Man&beta;1-4''Glc&beta;1-Cer''
|-
| Muco Gal&beta;1-4Gal&beta;1-4''Glc&beta;1-Cer''
|-
|
|}
| style="vertical-align:top;" |<!---Gala--->
{| class="collapsible" border="0" cellspacing="0"
! style="background:#efefef; text-align:center;" | 2nd saccharide
|-
| Gala Gal&alpha;1-4(6)''Gal&beta;1-Cer''
|-
| ??? Gal&beta;1-4(6)''Gal&beta;1-Cer''
|-
| Spirometo Gal&beta;1-4Glc&beta;1-3''Gal&beta;1-Cer''
|-
| NeuAc&alpha;2-3''Gal&beta;1-Cer''
|}
|-
| <big>'''Phospho''' (??)</big><br/> Ino-P-Cer
| <big>'''Others''' (??) </big>
|-
| style="vertical-align:top;" |<!---Phospho--->
{| class="collapsible" border="0" cellspacing="0"
! style="background:#efefef; text-align:center;" | 2nd saccharide
|
|}
| style="vertical-align:top;" |<!---Others--->
{| class="collapsible" border="0" cellspacing="0"
! style="background:#efefef; text-align:center;" | 2nd saccharide
|-
| ''
|-
|
|}
|}
</center>

Revision as of 12:23, 19 March 2011

Sphingolipid

Class Overview

Sphingosine & Ceramide

Sphingosine is synthesized from decarboxylating condensation of palmitoyl CoA with serine. It is a 18-carbon amino alcohol (16 carbons from palmitic acid and 2 from serine) with one unsaturated bond (2-amino-4-octadecene-1,3-diol). Sphingosine is further acylated to form ceramide, an important component of cell membranes.
The Sphingolipid category (LBS) in this database includes glycosphingolipid, phosphosphingolipid, and ceramide.

スフィンゴシンはパルミトイルCoAがアミノ酸セリンと脱炭酸縮合して生成します。炭素を18個含むアミノアルコール(16個がパルミチン酸、2個がセリン由来)で不飽和結合を1つ含んでいます (2-amino-4-octadecene-1,3-diol)。 スフィンゴシンがアシル化したものが、細胞膜の重要な成分であるセラミドです。
このデータベースにおけるスフィンゴ脂質カテゴリー (LBS) には、スフィンゴ糖脂質 (glycosphingolipid)、スフィンゴリン脂質 (phosphosphingolipid) 、セラミド (ceramide) が含まれています。

Abbreviations

Design of Page Titles for Sphingolipid

L B S V/I s1 s2 s3 n1 n2 y c1 c2

  • V for vertebrates and I for invertebrates
  • s1 ∼ s3 ... Structure code
The 1st letter s1:
Z for Galβ1-4Glcβ1-1bCer
Y (Arthro) for GlcNAcβ1-3Manβ1-4Glcβ1-1Cer
For others, 0 ∼ Q of the 1st sugar
The 2nd and 3rd letters s2 and s3:
0 to Q for the 3rd and 4th sugars for Z class
0 to Q for the 4th and 5th sugars for Y class
0 to Q for the 2nd and 3rd sugars for others
  • n1, n2 ... the number of sugars
  • y ... the number of sialic acids
  • c1, c2 ... serial numbers

  • x ... 脊椎動物は V 無脊椎動物は I
  • s1 ∼ s3 ... 構造コード
最初の文字 s1:
Z は Galβ1-4Glcβ1-1bCer
Y (Arthro型) は GlcNAcβ1-3Manβ1-4Glcβ1-1Cer
それ以外は最初の糖タイプにより 0 ∼ Q
２番目、３番目の文字 s2 and s3:
Zクラスの場合、３,４番目の糖タイプにより 0 to Q
Yクラスの場合、４,５番目の糖タイプにより 0 to Q
それ以外の場合、２,３番目の糖タイプにより 0 to Q
  • n1, n2 ... 糖の数
  • y ... シアル酸の数
  • c1, c2 ... 通し番号

Sugar Code

"I" and "O" are not used to avoid confusion with "1" or "0".

code sugar code sugar code sugar
0 no sugar A other Galactose (Gal)
including methylation 		L Rhamnose (Rha) or pentose sugars (Ara, Xyl)
1 Galα1-3 B Other N-acetyl galactosamine (GalNAc) or
glucosamine (GlcNAc) 		M Mannose (Man)
2 Galα1-4 C Galactosamine (GalN) or
Glucosamine (GlcN) 		N Neuraminic acids (NeuAc, NeuGc, NeuNH, KDN)
3 Galα1-6 D GlcNAcβ1-3 P phosphocholine (PC), phosphate (HPO3), sulphate (HSO3), and ethylene (2C=CH)
4 Galβ1-3 E GlcNAcβ1-4 Q Aminoethylphosphate (AEPn, MAEPr, EtnP)
5 Galβ1-4 F GlcNAcβ1-6
6 Galβ1-6 G Other Glucose (Glc)
7 GalNAcβ1-3 H Glucuronic acid (GlcA)
8 GalNAcβ1-4 J Inositol (Ins) Y GlcNAcβ1-3Manβ1-4Glcβ1-1Cer
9 GalNAcβ1-6 K Fucose (Fuc) Z Galβ1-4Glcβ1-1bCer

Classification

By the Number of Sugars 糖の個数

For glycosphingolipid, 2 digits following LBS stand for the number of attached sugars. For phosphosphingolipid, the code of phosphorylation, PP.

スフィンゴ糖脂質は結合している糖の総数をLBSに続く2桁の数字で、スフィンゴリン脂質は数字の代わりにリン酸化修飾を示す記号PPで分類しています。

Sphingolipid Overview

Glycosphingolipid
スフィンゴ糖脂質: LBSnn
LBSnn.png

Phosphosphingolipid
スフィンゴリン脂質: LBSPP
LBSPP.png

Table 1. Classification by the Number of Sugars
 
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Polysaccharide Chain

Table 1. Common Categories
Common Name Sequence LipidBank ID
By GalCer Synthase (EC 2.4.1.62)
Gala 0 Galα1-4Galβ1-Cer
Spirometo 0 Galβ1-4Glcβ1-3Galβ1-Cer
By GlcCer Synthase (EC 2.4.1.80)
Ganglio 0 GalNAcβ1-4Galβ1-4Glcβ1-Cer
Isoganglio 0 GalNAcβ1-3Galβ1-4Glcβ1-Cer
Globo 0 Galα1-4Galβ1-4Glcβ1-Cer
Isoglobo 0 Galα1-3Galβ1-4Glcβ1-Cer
Lacto 0 Galβ1-3GlcNAcβ1-3Galβ1-4Glcβ1-Cer
NeoLacto 0 Galβ1-4GlcNAcβ1-3Galβ1-4Glcβ1-Cer
Muco 0 Galβ1-4Galβ1-4Glcβ1-Cer
With Mannose
Arthro 0 GlcNAcβ1-3Manβ1-4Glcβ1-Cer
Mollu 0 Manα1-3Manβ1-4Glcβ1-Cer

Subcategories

This category has the following 4 subcategories, out of 4 total.

L

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