SubtiWiki - User contributions [en]

MciZ

2015-12-03T07:36:21Z

Raphael2215:

{{#bank: mciZ}}

* '''Description:''' [[FtsZ]] inhibition peptide 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''mciZ''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[FtsZ]] inhibition peptide
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || inhibits GTPase activity of [[FtsZ]] and Z ring formation during sporulation
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=3375 mciZ]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=MciZ MciZ]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 4.8 kDa, y.yy
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 120 bp, 40 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nudF]]'', ''[[yqkF]]''
|-
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_nucleotide.txt Gene sequence (+200bp) ]'''
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_protein.txt Protein sequence]'''
|-
|colspan="2" | '''Genetic context''' [[Image:nudF_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[cell division]]}},
{{SubtiWiki category|[[short peptides]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:'''

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' no entry

=== Additional information===

This gene was only recently identified. [http://www.ncbi.nlm.nih.gov/sites/entrez/18284588 PubMed]

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' inhibits GTPase activity of [[FtsZ]] and Z ring formation during sporulation {{PubMed|18284588}}

* '''Protein family:'''

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''
** [[MciZ]]-[[FtsZ]] {{PubMed|18284588}}, KD: 150 nM {{PubMed|25848052}}

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:'''
** [http://www.rcsb.org/pdb/explore/explore.do?structureId=2MRW 2MRW] {{PubMed|25848052}}
** [http://www.rcsb.org/pdb/explore/explore.do?structureId=4u39 4U39] ([[FtsZ]]-[[MciZ]] complex) {{PubMed|25848052}}

* '''Swiss prot entry:'''

* '''KEGG entry:''' no entry

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''Expression browser:''' [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=3375 mciZ] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' [[SigE]] {{PubMed|18284588}}

* '''Regulation:'''
** expressed early during sporulation in the mother cell ([[SigE]]) {{PubMed|18284588}}

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

==Reviews==
<pubmed> 19680248 </pubmed>
==Original Publications==
<pubmed>,18284588, 25848052</pubmed>
[[Category:short peptide]]

YxjC

2015-09-21T12:16:25Z

Raphael2215:

HbuT

2015-09-21T12:09:55Z

Raphael2215: Created page with "{{#bank: hbuT}}"

YxjC

2015-09-21T12:08:50Z

Raphael2215:

Utilization of specific carbon sources

2015-09-21T12:07:36Z

Raphael2215:

{{CategoryTree
|Parents=
* 2. [[Metabolism]]
** 2.2. [[Carbon metabolism]]
|Neighbours=
* 2.2.1. [[Carbon core metabolism]]
* 2.2.2. [[Utilization of specific carbon sources]]
|Related=
* [[CcpA regulon]]
|}}

== Genes in this functional category ==

=== Utilization of organic acids ===
* ''[[acsA]]''
* ''[[acuA]]''
* ''[[acuC]]''
* ''[[cimH]]''
* ''[[citH]]''
* ''[[citM]]''
* ''[[citS]]''
* ''[[citT]]''
* ''[[dctB]]''
* ''[[dctP]]''
* ''[[dctR]]''
* ''[[dctS]]''
* ''[[hbuT]]''
* ''[[lutA]]''
* ''[[lutB]]''
* ''[[lutC]]''
* ''[[lutP]]''
* ''[[lutR]]''
* ''[[maeA]]''
* ''[[maeN]]''
* ''[[malK]]''
* ''[[malR]]''
* ''[[malS]]''
* ''[[mleA]]''
* ''[[mleN]]''
* ''[[scoA]]''
* ''[[scoB]]''
* ''[[yflS]]''
* ''[[yoaB]]''
* ''[[yraO]]''
* ''[[ytsJ]]''
* ''[[yxjF]]''

=== Utilization of acetoin ===
* ''[[acoA]]''
* ''[[acoB]]''
* ''[[acoC]]''
* ''[[acoL]]''
* ''[[acoR]]''

=== Utilization of glycerol/ glycerol-3-phosphate ===
* ''[[glpD]]''
* ''[[glpF]]''
* ''[[glpK]]''
* ''[[glpP]]''
* ''[[glpQ]]''
* ''[[glpT]]''

=== Utilization of ribose ===
* ''[[rbsA]]''
* ''[[rbsB]]''
* ''[[rbsC]]''
* ''[[rbsD]]''
* ''[[rbsK]]''
* ''[[rbsR]]''

=== Utilization of xylan/ xylose ===
* ''[[araE]]''
* ''[[xylA]]''
* ''[[xylB]]''
* ''[[xylR]]''
* ''[[xynA]]''
* ''[[xynB]]''
* ''[[xynP]]''

=== Utilization of arabinan/ arabinose/ arabitol ===
* ''[[abf2]]''
* ''[[abfA]]''
* ''[[abn2]]''
* ''[[abnA]]''
*'' [[araA]]''
* ''[[araB]]''
* ''[[araD]]''
* ''[[araE]]''
* ''[[araN]]''
* ''[[araP]]''
* ''[[araQ]]''
* ''[[araR]]''

=== Utilization of fructose ===
* ''[[fruA]]''
* ''[[fruK]]''
* ''[[fruR]]''
* ''[[levD]]''
* ''[[levE]]''
* ''[[levF]]''
* ''[[levG]]''
* ''[[levR]]''

=== Utilization of galactose ===
* ''[[araE]]''
* ''[[galE]]''
* ''[[galK]]''
* ''[[galM]]''
* ''[[galT]]''

=== Utilization of mannose ===
* ''[[manA]]''
* ''[[manP]]''
* ''[[manR]]''
* ''[[pmi]]''

=== Utilization of mannitol ===
* ''[[mtlA]]''
* ''[[mtlD]]''
* ''[[mtlF]]''
* ''[[mtlR]]''

=== Utilization of glucitol ===
* ''[[gutB]]''
* ''[[gutP]]''
* ''[[gutR]]''

=== Utilization of gluconate ===
* ''[[gntK]]''
* ''[[gntP]]''
* ''[[gntR]]''
* ''[[gntZ]]''

=== Utilization of glucarate/galactarate ===
* ''[[ycbC]]''
* ''[[ycbD]]''
* ''[[ycbE]]''
* ''[[ycbF]]''
* ''[[ycbG]]''
*'' [[ycbH]]''

=== Utilization of hexuronate ===
* ''[[exuR]]''
* ''[[exuT]]''
* ''[[kdgA]]''
* ''[[kdgK]]''
* ''[[kdgR]]''
* ''[[kdgT]]''
* ''[[kduD]]''
* ''[[kduI]]''
* ''[[uxaA]]''
* ''[[uxaB]]''
* ''[[uxaC]]''
* ''[[uxuA]]''
* ''[[yjmB]]''
* ''[[yjmC]]''
* ''[[yjmD]]''
* ''[[yjmF]]''

=== Utilization of inositol ===
* ''[[iolA]]''
* ''[[iolB]]''
* ''[[iolC]]''
* ''[[iolD]]''
* ''[[iolE]]''
* ''[[iolF]]''
* ''[[iolG]]''
* ''[[iolH]]''
* ''[[iolI]]''
* ''[[iolJ]]''
* ''[[iolR]]''
* ''[[iolS]]''
* ''[[iolT]]''
* ''[[iolW]]''
* ''[[iolX]]''
* ''[[yfiG]]''

=== Utilization of amino sugars ===
* ''[[frlB]]''
* ''[[frlD]]''
* ''[[frlM]]''
* ''[[frlN]]''
*'' [[frlO]]''
* ''[[frlR]]''
* ''[[gamA]]''
* ''[[gamP]]''
* ''[[gamR]]''
* ''[[murP]]''
* ''[[murQ]]''
* ''[[murR]]''
* ''[[nagA]]''
* ''[[nagB]]''
* ''[[nagP]]''
* ''[[nagR]]''
* ''[[yurJ]]''

=== Utilization of beta-glucosides ===
* ''[[bglA]]''
* ''[[bglH]]''
* ''[[bglP]]''
* ''[[licT]]''
* ''[[yckE]]''

=== Utilization of sucrose ===
* ''[[fruC]]''
* ''[[sacA]]''
* ''[[sacB]]''
* ''[[sacP]]''
* ''[[sacT]]''
* ''[[sacX]]''
* ''[[sacY]]''

=== Utilization of trehalose ===
* ''[[glcK]]''
* ''[[treA]]''
* ''[[treP]]''
* ''[[treR]]''

=== Utilization of melibiose ===
* ''[[amyC]]''
* ''[[amyD]]''
* ''[[melA]]''
* ''[[msmE]]''
* ''[[msmR]]''
* ''[[msmX]]''

=== Utilization of maltose ===
* ''[[glcK]]''
*'' [[glvR]]''
* ''[[malA]]''
* ''[[malP]]''
* ''[[yvdK]]''

=== Utilization of starch/ maltodextrin ===
* ''[[amyE]]''
* ''[[amyX]]''
* ''[[glcK]]''
* ''[[maa]]''
* ''[[malL]]''
* ''[[mdxE]]''
* ''[[mdxF]]''
* ''[[mdxG]]''
* ''[[msmX]]''
* ''[[pgcM]]''
* ''[[yvdE]]''
* ''[[yvdF]]''

=== Utilization of glucomannan ===
* ''[[gmuA]]''
* ''[[gmuB]]''
* ''[[gmuC]]''
* ''[[gmuD]]''
* ''[[gmuE]]''
* ''[[gmuF]]''
* ''[[gmuG]]''
* ''[[gmuR]]''

=== Utilization of rhamnose and pectin ===
* ''[[lplD]]''
* ''[[rhaA]]''
* ''[[rhaB]]''
* ''[[rhaEW]]''
* ''[[rhaM]]''
* ''[[rhaR]]''
* ''[[rhiF]]''
* ''[[rhiG]]''
* ''[[rhiL]]''
* ''[[rhiN]]''
* ''[[rhgR]]''
* ''[[ybcM]]''
* ''[[yesT]]''
* ''[[yesV]]''
* ''[[yesW]]''
* ''[[yesX]]''
* ''[[yesY]]''
* ''[[yesZ]]''
* ''[[yteR]]''

=== Utilization of galactan ===
* ''[[cycB]]''
* ''[[ganA]]''
* ''[[ganB]]''
*'' [[ganP]]''
* ''[[ganQ]]''
* ''[[lacR]]''

=== Utilization of other polymeric carbohydrates ===
* ''[[bglC]]''
* ''[[bglS]]''
* ''[[csn]]''
* ''[[levB]]''
* ''[[levD]]''
* ''[[levE]]''
* ''[[levF]]''
* ''[[levG]]''
* ''[[levR]]''
* ''[[licA]]''
* ''[[licB]]''
* ''[[licC]]''
* ''[[licH]]''
* ''[[licR]]''
* ''[[licT]]''
* ''[[pel]]''
* ''[[pelB]]''
* ''[[pelC]]''
* ''[[sacC]]''
* ''[[senS]]''
* ''[[xynC]]''
* ''[[xynD]]''
* ''[[ysdC]]''
* ''[[ytoP]]''
* ''[[yugT]]''

=== Utilization of other pentoses and hexoses===
* ''[[ydaE]]''

== Utilization of specific carbon sources in [http://subtiwiki.uni-goettingen.de/subtipathways.html ''Subti''Pathways]: [http://subtiwiki.uni-goettingen.de/pathways/carbohydrate_metabolic_pathways.html Utilization of different carbon sources]==

==Reviews==
<pubmed> 11018147 19202299 17982469 </pubmed>
=Back to [[categories]]=

2014-05-07T07:42:18Z

Raphael2215:

File:Cuartos.gif

2014-05-07T07:41:52Z

Raphael2215:

File:Sextos.png

2014-05-07T07:20:32Z

Raphael2215:

File:Cuartos.png

2014-05-07T07:20:20Z

Raphael2215:

2014-02-12T14:18:56Z

Raphael2215:

User:Raphael2215

2014-02-12T14:16:55Z

Raphael2215: Created page with "{| align="left" border="5" cellpadding="5" |- |style="background:#ABCDEF;" align="center"|'''user name''' |Raphael Michna ([mailto:rmichna@gwdg.de send mail]) |- |style="back..."

{| align="left" border="5" cellpadding="5"
|-
|style="background:#ABCDEF;" align="center"|'''user name'''
|Raphael Michna ([mailto:rmichna@gwdg.de send mail])
|-
|style="background:#ABCDEF;" align="center"| '''status''' || PhD student
|-
|style="background:#ABCDEF;" align="center"| '''nickname''' || Socke
|-
|style="background:#ABCDEF;" align="center"| '''hair color''' || brown
|-
|style="background:#ABCDEF;" align="center"| '''weight''' || 80 kg
|-
|style="background:#ABCDEF;" align="center"|'''shoe size''' || 43
|-
|style="background:#ABCDEF;" align="center"| '''hobbies''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''dedication''' || ''Subti''Wiki & [[SubtiPathways|''Subti''Pathways]]
|-
|style="background:#FAF8CC;" align="center"|'''collaborating with '''
|style="background:#FAF8CC;" align="center"|'''[[User:Aschmei|Aschmei]] and [[Sroppel]] '''
|-
|-
|}
 

[[Image:mutant.jpg|400px|thumb|left|]]

SubtiPathways

2014-01-30T14:12:34Z

Raphael2215: /* metal ion homeostasis */

[[File:Pathway_start_page_small.png|right|link=http://subtiwiki.uni-goettingen.de/subtipathways/start.php]]
[[File:Legende.jpg|250px|thumb|right|'''legend for ''Subti''Pathways graphical notation: click to enlarge''']]

<big>'''''Subti''Pathways''' is a model of '''''B. subtilis''''' metabolism and regulation in '''SBML/SBGN''' (Systems Biology Markup Language/ Graphical Notation). There is a color code for key metabolites (see the legend on the right side). It can be used like Google Maps (scroll and zoom to the pathways). The markers of proteins and compounds listed on the right side in each pathway are containing links to the corresponding ''Subti''Wiki and PubChem pages, respectively. There is a short description for each protein in the bubbles, too.</big>

<big>'''Contact:'''</big> [http://wwwuser.gwdg.de/~genmibio/stuelke.html General Microbiology, University of Göttingen], [mailto:jstuelk@gwdg.de send mail]

 
<big>'''Now online: A description of ''Subti''Wiki, ''Subti''Pathways, and ''Subt''Interact in the 2012 Database issue of Nucleic Acids Research'''</big>
<pubmed> 22096228 </pubmed>
__NOTOC__

 

== A collection of important papers on ''B. subtilis'' [[metabolism]] can be found [[metabolism|here]] ==
 
== Carbon metabolism ==

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=cent Central carbon metabolism] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=carb Utilization of different carbon sources] ===

 

== Nitrogen and amino acid metabolism ==

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=glut Ammonium assimilation and glutamate metabolism (incl. glutamine and arginine)] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=alan Alanine, glycine, serine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=aspa Aspartate, asparagine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=cyst Cysteine, methionine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=hist Histidine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=isol Isoleucine, valine, leucine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=lysi Lysine, threonine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=tryp Phenylalanine, tyrosine, tryptophan] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=prol Proline] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/other_nitrogen_sources/index.html Utilization of other nitrogen sources] ===

 

== Lipid metabolism ==

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=fatt Fatty acid and phospholipid biosynthesis] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/fatty_acid_degradation.html Fatty acid degradation] ===

 

== Nucleotides ==

=== [http://subtiwiki.uni-goettingen.de/pathways/gene_regulation_nucleotides.html Gene regulation of nucleotide metabolism] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=nucl Nucleoside catabolism] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=meta Purine biosynthesis] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/purines_catabolism.html Purine catabolism] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=puri Purine salvage pathways] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=pyri Pyrimidine metabolism] ===

 

== Metabolism of cofactors ==

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=synt CoA synthesis] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=fola Folate biosynthesis] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=mena Menaquinone] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=ribo Riboflavin and FAD synthesis] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/thiamin.html Thiamin synthesis] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/biotin/index.html Biotin synthesis] ===

 

== Other pathways ==

=== [http://subtiwiki.uni-goettingen.de/pathways/cellwall.html Cell wall] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/murein/index.html Murein recycling] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=stre Stress responses] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/cys_meth_and_sulfate_assimilation.html Sulfate assimilation] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=trna tRNA charging] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm formation] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/secretion/index.html Protein secretion] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=lipo Lipoate biosynthesis ] ===

== Publications describing ''Subti''Wiki and ''Subti''Pathways ==
<pubmed>19959575 22096228</pubmed>

SubtiPathways

2014-01-30T13:59:18Z

Raphael2215: /* Phenylalanine, tyrosine, tryptophan */

[[File:Pathway_start_page_small.png|right|link=http://subtiwiki.uni-goettingen.de/subtipathways/start.php]]
[[File:Legende.jpg|250px|thumb|right|'''legend for ''Subti''Pathways graphical notation: click to enlarge''']]

<big>'''''Subti''Pathways''' is a model of '''''B. subtilis''''' metabolism and regulation in '''SBML/SBGN''' (Systems Biology Markup Language/ Graphical Notation). There is a color code for key metabolites (see the legend on the right side). It can be used like Google Maps (scroll and zoom to the pathways). The markers of proteins and compounds listed on the right side in each pathway are containing links to the corresponding ''Subti''Wiki and PubChem pages, respectively. There is a short description for each protein in the bubbles, too.</big>

<big>'''Contact:'''</big> [http://wwwuser.gwdg.de/~genmibio/stuelke.html General Microbiology, University of Göttingen], [mailto:jstuelk@gwdg.de send mail]

 
<big>'''Now online: A description of ''Subti''Wiki, ''Subti''Pathways, and ''Subt''Interact in the 2012 Database issue of Nucleic Acids Research'''</big>
<pubmed> 22096228 </pubmed>
__NOTOC__

 

== A collection of important papers on ''B. subtilis'' [[metabolism]] can be found [[metabolism|here]] ==
 
== Carbon metabolism ==

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=cent Central carbon metabolism] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=carb Utilization of different carbon sources] ===

 

== Nitrogen and amino acid metabolism ==

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=glut Ammonium assimilation and glutamate metabolism (incl. glutamine and arginine)] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=alan Alanine, glycine, serine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=aspa Aspartate, asparagine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=cyst Cysteine, methionine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=hist Histidine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=isol Isoleucine, valine, leucine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=lysi Lysine, threonine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=tryp Phenylalanine, tyrosine, tryptophan] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=prol Proline] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/other_nitrogen_sources/index.html Utilization of other nitrogen sources] ===

 

== Lipid metabolism ==

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=fatt Fatty acid and phospholipid biosynthesis] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/fatty_acid_degradation.html Fatty acid degradation] ===

 

== Nucleotides ==

=== [http://subtiwiki.uni-goettingen.de/pathways/gene_regulation_nucleotides.html Gene regulation of nucleotide metabolism] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=nucl Nucleoside catabolism] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=meta Purine biosynthesis] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/purines_catabolism.html Purine catabolism] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=puri Purine salvage pathways] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=pyri Pyrimidine metabolism] ===

 

== Metabolism of cofactors ==

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=synt CoA synthesis] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=fola Folate biosynthesis] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=mena Menaquinone] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=ribo Riboflavin and FAD synthesis] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/thiamin.html Thiamin synthesis] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/biotin/index.html Biotin synthesis] ===

 

== Other pathways ==

=== [http://subtiwiki.uni-goettingen.de/pathways/cellwall.html Cell wall] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/murein/index.html Murein recycling] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=stre Stress responses] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/cys_meth_and_sulfate_assimilation.html Sulfate assimilation] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=trna tRNA charging] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm formation] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/secretion/index.html Protein secretion] ===

=== [http://cellpublisher.gobics.de/view/GqbblRJkBH metal ion homeostasis] ===

== Publications describing ''Subti''Wiki and ''Subti''Pathways ==
<pubmed>19959575 22096228</pubmed>

SubtiPathways

2014-01-30T13:58:07Z

Raphael2215: /* tRNA charging */

[[File:Pathway_start_page_small.png|right|link=http://subtiwiki.uni-goettingen.de/subtipathways/start.php]]
[[File:Legende.jpg|250px|thumb|right|'''legend for ''Subti''Pathways graphical notation: click to enlarge''']]

<big>'''''Subti''Pathways''' is a model of '''''B. subtilis''''' metabolism and regulation in '''SBML/SBGN''' (Systems Biology Markup Language/ Graphical Notation). There is a color code for key metabolites (see the legend on the right side). It can be used like Google Maps (scroll and zoom to the pathways). The markers of proteins and compounds listed on the right side in each pathway are containing links to the corresponding ''Subti''Wiki and PubChem pages, respectively. There is a short description for each protein in the bubbles, too.</big>

<big>'''Contact:'''</big> [http://wwwuser.gwdg.de/~genmibio/stuelke.html General Microbiology, University of Göttingen], [mailto:jstuelk@gwdg.de send mail]

 
<big>'''Now online: A description of ''Subti''Wiki, ''Subti''Pathways, and ''Subt''Interact in the 2012 Database issue of Nucleic Acids Research'''</big>
<pubmed> 22096228 </pubmed>
__NOTOC__

 

== A collection of important papers on ''B. subtilis'' [[metabolism]] can be found [[metabolism|here]] ==
 
== Carbon metabolism ==

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=cent Central carbon metabolism] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=carb Utilization of different carbon sources] ===

 

== Nitrogen and amino acid metabolism ==

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=glut Ammonium assimilation and glutamate metabolism (incl. glutamine and arginine)] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=alan Alanine, glycine, serine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=aspa Aspartate, asparagine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=cyst Cysteine, methionine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=hist Histidine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=isol Isoleucine, valine, leucine] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=lysi Lysine, threonine] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/phenyl_tyr_tryp.html Phenylalanine, tyrosine, tryptophan] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=prol Proline] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/other_nitrogen_sources/index.html Utilization of other nitrogen sources] ===

 

== Lipid metabolism ==

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=fatt Fatty acid and phospholipid biosynthesis] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/fatty_acid_degradation.html Fatty acid degradation] ===

 

== Nucleotides ==

=== [http://subtiwiki.uni-goettingen.de/pathways/gene_regulation_nucleotides.html Gene regulation of nucleotide metabolism] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=nucl Nucleoside catabolism] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=meta Purine biosynthesis] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/purines_catabolism.html Purine catabolism] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=puri Purine salvage pathways] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=pyri Pyrimidine metabolism] ===

 

== Metabolism of cofactors ==

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=synt CoA synthesis] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=fola Folate biosynthesis] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=mena Menaquinone] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=ribo Riboflavin and FAD synthesis] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/thiamin.html Thiamin synthesis] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/biotin/index.html Biotin synthesis] ===

 

== Other pathways ==

=== [http://subtiwiki.uni-goettingen.de/pathways/cellwall.html Cell wall] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/murein/index.html Murein recycling] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=stre Stress responses] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/cys_meth_and_sulfate_assimilation.html Sulfate assimilation] ===

=== [http://subtiwiki.uni-goettingen.de/subtipathways/index.php?pathway=trna tRNA charging] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm formation] ===

=== [http://subtiwiki.uni-goettingen.de/pathways/secretion/index.html Protein secretion] ===

=== [http://cellpublisher.gobics.de/view/GqbblRJkBH metal ion homeostasis] ===

== Publications describing ''Subti''Wiki and ''Subti''Pathways ==
<pubmed>19959575 22096228</pubmed>

SubtiWiki - User contributions [en]

MciZ

YxjC

HbuT

YxjC

Utilization of specific carbon sources

Hbut

GudB

GudB

YwlE

GudB

McsB

McsB

GudB

GudB

GudB

GudB

YjzF

File:ScpB expression.png

Sandbox

Sandbox

File:YgzD1 expression.png

YgzD

File:Test.gif

Sandbox

Sandbox

Sandbox

File:﻿quintos.gif

File:Cuartos.gif

File:Sextos.png

File:Cuartos.png

File:Quintos.png

Main Page

Main Page

Sandbox

Sandbox

Sandbox

Sandbox

MciZ

MciZ

DnaA

DnaA

Sandbox

Abn2

Abn2

Abn2

File:Mutant.jpg

User:Raphael2215

SubtiPathways

SubtiPathways

SubtiPathways

File:quintos.gif