Category:LBA: Difference between revisions

Revision as of 07:11, 9 March 2013

Archaeal Lipid

Upper classes: LB

Class Overview

Archaeal lipid is composed of sn-glycerol 1-phosphate and isoprenoids. This composition is different from lipid in eubacteria and eukaryotes, which comprises of sn-glycerol 3-phosphate and fatty acids. Responsible enzymes are also non-homologous. Archaea also contains tetraether lipid

アーキア古細菌と呼ばれることが多いのですが、真性細菌と明確に区別するためにここではアーキアと記します。の脂質は、 sn-グリセロール1リン酸にイソプレン骨格がエーテル結合しています。これは、グリセロール3リン酸と脂肪酸を利用する真性細菌や真核生物と全く異なる構造で、生合成をおこなう酵素も相同ではありません。またテトラエーテル型と呼ばれるイソプレン骨格が末端で重合した環状脂質も広く存在し、これが単分子膜を形成すると考えられています。

Archaea are separated into two phyla which show three different characters (Table 1: leftmost column).

アーキアの系統はcrenarchaeotaとeuryarchaetaに分かれますが、特徴からみると三通りになります（表の最左カラム）。

Table 1. Clades in Archaea
Character	Phyrum (綱)	Order (目)	Family (科)
Non-methanogenic thermophils	crenarchaeota	desulfurococcales	desulfurococcaceae, pyrodictiaceae
		sulfolobales	sulfolobaceae
		thermoproteales	thermoproteaceae
	euryarchaeota	thermococcales	thermococcaceae
		thermoplasmatales	thermoplasmataceae
Halophils		halobacteriales	halobacteriaceae
Methanogens		methanobacteriales	methanobacteriaceae, methanothermaceae
		methanococcales	methanococcaceae, methanocaldococcaceae
		methanomicrobiales	methanomicrobiaceae, methanospirillaceae
		methanopyrales	methanopyraceae
		methanosarcinales	methanosarcinaceae, methanosaetaceae

Design of Fat acyl Page Titles

Each ID contains information on backbone type, chemical modification of polar head, and attached sugars.

各分子のページIDは基本骨格、極性基のタイプ、糖のタイプがコード化されています。

9-DIGIT

L

B

A

x

y

z

w

c

x ... backbone type
y ... polar-head type
z ... sugar type
w ... number of sugars
c ... serial number

x ... バックボーンの構造
y ... 極性基（リン酸部分）の構造
z ... 糖のタイプ
w ... 糖の個数
c ... 通し番号

Classification 分類

Backbone Structure 基本構造

Backbone Structure
A: archaeol (C20,C20 type below) File:LBAA.png
H: hydroxy & methoxy archaeol (sn-2-hydroxy below) File:LBAH.png
U: unsaturated (alkenyl) archaeol File:LBAU.png
C: caldachaeol (tetraether type) File:LBAC.png
D: calditocaldarchaeol File:LBAD.png
Y: cyclic archaeol File:LBAY.png

Order

Backbone

Polar-head

Sugar

{{#lua:

 desulfurococcales ={{},{},{}}
 sulfolobales ={{},{},{}}
 thermoproteales ={{},{},{}}
 thermococcales ={{},{},{}}
 thermoplasmatales ={{},{},{}}
 halobacteriales ={{},{},{}}
 methanobacteriales ={{},{},{}}
 methanococcales ={{},{},{}}
 methanomicrobiales ={{},{},{}}
 methanopyrales ={{},{},{}}
 methanosarcinales ={{},{},{}}

 function printtable(name, T) print("\n|-\n|"..name.." || ") for k,v in pairs(T[1]) do print(k) end print(" || ") for k,v in pairs(T[2]) do print(k) end print(" || ") for k,v in pairs(T[3]) do print(k) end end
 function register(T, id) T[1][string.sub(id,4,4)] = true T[2][string.sub(id,5,5)] = true T[3][string.sub(id,6,6)] = true end

 for ref, sp, id in stdin:gmatch("|?|?([%w\. ]+)||([%w\., ]+)||([^\n]+)") do
   if (string.match(sp,"Aeropyrum") or string.match(sp,"Desulfurococcus") or string.match(sp,"Pyrolobus"))
     then register(desulfurococcales, id)
   elseif (string.match(sp,"Acidianus") or string.match(sp,"Sulfolobus") or string.match(sp,"Desulfurolobus"))
     then register(sulfolobales, id)
   elseif (string.match(sp,"Pyrobaculum") or string.match(sp,"Thermoproteus"))
     then register(thermoproteales, id)
   elseif (string.match(sp,"Pyrococcus") or string.match(sp,"Thermococcus"))
     then register(thermococcales, id)
   elseif (string.match(sp,"Thermoplasma"))
     then register(thermoplasmatales, id)
   elseif (string.match(sp,"Haloarcula") or string.match(sp,"Halobacterium") or string.match(sp,"Halococcus") or string.match(sp,"Haloferax") or string.match(sp,"Halorubrum") or string.match(sp,"Natrialba") or string.match(sp,"Natronobacterium") or string.match(sp,"Natronococcus"))
     then register(halobacteriales, id)
   elseif (string.match(sp,"Methanobacterium") or string.match(sp,"Methanobrevibacter") or string.match(sp,"Methanosphaera") or string.match(sp,"Methanothermobacter"))
     then register(methanobacteriales, id)
   elseif (string.match(sp,"Methanothermococcus") or string.match(sp,"Methanococcus") or string.match(sp,"Methanocaldococcus"))
     then register(methanococcales, id)
   elseif (string.match(sp,"Methanomicrobium") or string.match(sp,"Methanospirillum"))
     then register(methanomicrobiales, id)
   elseif (string.match(sp,"Methanopyrus"))
     then register(methanopyrales, id)
   elseif (string.match(sp,"Methanococcoides") or string.match(sp,"Methanohalophilus") or string.match(sp,"Methanolobus") or string.match(sp,"Methanosarcina"))
     then register(methanosarcinales, id)
   end
 end
 printtable("desulfurococcales", desulfurococcales)
 printtable("sulfolobales",sulfolobales)
 printtable("thermoproteales",thermoproteales)
 printtable("thermococcales",thermococcales)
 printtable("thermoplasmatales",thermoplasmatales)
 printtable("halobacteriales",halobacteriales)
 printtable("methanobacteriales",methanobacteriales)
 printtable("methanococcales",methanococcales)
 printtable("methanomicrobiales",methanomicrobiales)
 printtable("methanopyrales",methanopyrales)
 printtable("mehtanosarcinales",methanosarcinales)

}}

Polar-head Type: N: no structure; P: phosphate; C: phosphocholine; E: phosphoethanolamine; I: phosphoinositol; S: phosphoserine; G: phosphoglycerol; A: aminopentanetetrol; X: others

Sugar Type: G: glucose and galactose; M: including mannose; L: including gulose; S: including HSO3; C: including nonitol; X: others;

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Category:LBA: Difference between revisions

Revision as of 07:11, 9 March 2013

Contents

Class Overview

Design of Fat acyl Page Titles

Classification 分類

Backbone Structure 基本構造

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