https://subtiwiki.uni-goettingen.de/wiki//api.php?action=feedcontributions&feedformat=atom&user=Scheffers 2026-04-20T12:41:38Z User contributions MediaWiki 1.30.0 https://subtiwiki.uni-goettingen.de/wiki//index.php?title=Talk:SubtiPathways&diff=139213 2010-12-13T12:07:25Z

<p>Scheffers: /* Cellwall */</p> <hr /> <div>&lt;big&gt;'''Discovered something unusual in the diagrams? Please leave a comment in the corresponding section!'''&lt;/big&gt;<br /> <br /> __TOC__<br /> <br /> == General comments about all diagrams ==<br /> * There seem to be some compatibility problems using Google Chrome. Nonetheless, Mozilla Firefox, Netscape, Microsoft Explorer, Safari, and Opera are working properly.<br /> * write comments here <br /> <br /> &lt;br/&gt;<br /> <br /> == Carbon metabolism ==<br /> <br /> === Central carbon metabolism ===<br /> <br /> * write comments here<br /> <br /> === Utilization of different carbon sources === <br /> <br /> * write comments here <br /> <br /> &lt;br/&gt;<br /> <br /> == Nitrogen and amino acid metabolism ==<br /> <br /> === Ammonium assimilation and glutamate metabolism (incl. glutamine and arginine) ===<br /> <br /> <br /> *write comments here<br /> <br /> === Alanine, glycine, serine ===<br /> <br /> <br /> *write comments here<br /> <br /> === Aspartate, asparagine ===<br /> <br /> * write comments here<br /> <br /> === Cysteine, methionine ===<br /> <br /> * Repel: Eventuell Einbindung von Extramarkern für die S-Box (bzw. alle riboswitches)???? Es gibt ja dafür extra Seiten im Subtiwiki. Sollte man aber erst mal mit Lope und Arne diskutieren (Jörg)<br /> * Cystin-Aufnahme-Systeme mit aufnehmen: TcyP, TcyABC, TcyJKLMN (Jörg)<br /> <br /> === Histidine ===<br /> <br /> *write comments here<br /> <br /> === Isoleucine, valine, leucine ===<br /> <br /> * Isoleucin-Abbau: Bcd und YwaA sind zwei unterschiedliche Reaktionen, Bcd geht mit NAD, nicht mit 2-KG (Jörg)<br /> <br /> === Lysine, threonine ===<br /> <br /> * write comments here<br /> <br /> === Phenylalanine, tyrosine, tryptophan ===<br /> <br /> * write comments here<br /> <br /> === Proline ===<br /> <br /> * write comments here<br /> <br /> === Utilization of other nitrogen sources ===<br /> <br /> * write comments here<br /> <br /> &lt;br/&gt;<br /> <br /> == Lipid metabolism ==<br /> <br /> === Fatty acid and phospholipid biosynthesis ===<br /> <br /> * The structure of PDGP is wrong (although the name, CDP-diacylglycerol, seems right). Wrong PubChem ID?<br /> * The same applies for phosphatidylglycerol, L-serine, and others.<br /> <br /> === Fatty acid degradation ===<br /> <br /> * write comments here<br /> <br /> == Nucleotides ==<br /> <br /> === Gene regulation of nucleotides ===<br /> <br /> * write comments here<br /> <br /> === Nucleosides catabolism ===<br /> <br /> *write comments here<br /> <br /> === Purine metabolism ===<br /> <br /> *write comments here<br /> <br /> === Purine catabolism ===<br /> <br /> *write comments here<br /> <br /> === Purine salvage pathways ===<br /> <br /> * write comments here<br /> <br /> === Pyrimidine metabolism ===<br /> <br /> *write comments here<br /> <br /> <br /> &lt;br/&gt;<br /> <br /> == Metabolism of cofactors ==<br /> <br /> === CoA synthesis ===<br /> <br /> *write comments here<br /> <br /> === Folate biosynthesis ===<br /> <br /> *write comments here<br /> <br /> === Menaquinone ===<br /> <br /> *write comments here<br /> <br /> === Riboflavin and FAD synthesis ===<br /> <br /> * write comments here<br /> <br /> === Thiamin synthesis ===<br /> <br /> * write comments here <br /> <br /> === Biotin synthesis ===<br /> <br /> * write comments here<br /> <br /> &lt;br/&gt;<br /> <br /> == Other pathways ==<br /> <br /> === Cellwall ===<br /> In the reaction catalysed by MurE, Lysine is added as the third residue of the stempeptide. This is incorrect - In Bacillus subtilis this is meso-diaminopimelic acid (as in E. coli). For refs see eg Scheffers and Pinho, MMBR 2005, 585; or Foster and Popham, Chapter 4 p 21, in Bacillus subtilis and its closest relatives, 2002 ASM Press (ed Sonenshein).<br /> *write comments here<br /> <br /> === Murein recycling ===<br /> <br /> *write comments here<br /> <br /> === Stress response ===<br /> <br /> * write comments here<br /> <br /> === Phosphorelay ===<br /> * In the interaction between KipI and KipA, that prevents the complex between KinA and KipI, KinA should be released from the complex. This has to be added to the diagram.<br /> <br /> === Sulfate assimilation ===<br /> <br /> *write comments here<br /> <br /> === tRNA charging ===<br /> <br /> * write comments here<br /> <br /> === Biofilm formation ===<br /> <br /> * SlrR bind SinR, according to Losick {{PubMed|20351052}}<br /> <br /> === Protein secretion ===<br /> <br /> * write comments here</div>

Scheffers https://subtiwiki.uni-goettingen.de/wiki//index.php?title=Talk:SubtiPathways&diff=139212 2010-12-13T12:06:50Z

<p>Scheffers: /* Cellwall */</p> <hr /> <div>&lt;big&gt;'''Discovered something unusual in the diagrams? Please leave a comment in the corresponding section!'''&lt;/big&gt;<br /> <br /> __TOC__<br /> <br /> == General comments about all diagrams ==<br /> * There seem to be some compatibility problems using Google Chrome. Nonetheless, Mozilla Firefox, Netscape, Microsoft Explorer, Safari, and Opera are working properly.<br /> * write comments here <br /> <br /> &lt;br/&gt;<br /> <br /> == Carbon metabolism ==<br /> <br /> === Central carbon metabolism ===<br /> <br /> * write comments here<br /> <br /> === Utilization of different carbon sources === <br /> <br /> * write comments here <br /> <br /> &lt;br/&gt;<br /> <br /> == Nitrogen and amino acid metabolism ==<br /> <br /> === Ammonium assimilation and glutamate metabolism (incl. glutamine and arginine) ===<br /> <br /> <br /> *write comments here<br /> <br /> === Alanine, glycine, serine ===<br /> <br /> <br /> *write comments here<br /> <br /> === Aspartate, asparagine ===<br /> <br /> * write comments here<br /> <br /> === Cysteine, methionine ===<br /> <br /> * Repel: Eventuell Einbindung von Extramarkern für die S-Box (bzw. alle riboswitches)???? Es gibt ja dafür extra Seiten im Subtiwiki. Sollte man aber erst mal mit Lope und Arne diskutieren (Jörg)<br /> * Cystin-Aufnahme-Systeme mit aufnehmen: TcyP, TcyABC, TcyJKLMN (Jörg)<br /> <br /> === Histidine ===<br /> <br /> *write comments here<br /> <br /> === Isoleucine, valine, leucine ===<br /> <br /> * Isoleucin-Abbau: Bcd und YwaA sind zwei unterschiedliche Reaktionen, Bcd geht mit NAD, nicht mit 2-KG (Jörg)<br /> <br /> === Lysine, threonine ===<br /> <br /> * write comments here<br /> <br /> === Phenylalanine, tyrosine, tryptophan ===<br /> <br /> * write comments here<br /> <br /> === Proline ===<br /> <br /> * write comments here<br /> <br /> === Utilization of other nitrogen sources ===<br /> <br /> * write comments here<br /> <br /> &lt;br/&gt;<br /> <br /> == Lipid metabolism ==<br /> <br /> === Fatty acid and phospholipid biosynthesis ===<br /> <br /> * The structure of PDGP is wrong (although the name, CDP-diacylglycerol, seems right). Wrong PubChem ID?<br /> * The same applies for phosphatidylglycerol, L-serine, and others.<br /> <br /> === Fatty acid degradation ===<br /> <br /> * write comments here<br /> <br /> == Nucleotides ==<br /> <br /> === Gene regulation of nucleotides ===<br /> <br /> * write comments here<br /> <br /> === Nucleosides catabolism ===<br /> <br /> *write comments here<br /> <br /> === Purine metabolism ===<br /> <br /> *write comments here<br /> <br /> === Purine catabolism ===<br /> <br /> *write comments here<br /> <br /> === Purine salvage pathways ===<br /> <br /> * write comments here<br /> <br /> === Pyrimidine metabolism ===<br /> <br /> *write comments here<br /> <br /> <br /> &lt;br/&gt;<br /> <br /> == Metabolism of cofactors ==<br /> <br /> === CoA synthesis ===<br /> <br /> *write comments here<br /> <br /> === Folate biosynthesis ===<br /> <br /> *write comments here<br /> <br /> === Menaquinone ===<br /> <br /> *write comments here<br /> <br /> === Riboflavin and FAD synthesis ===<br /> <br /> * write comments here<br /> <br /> === Thiamin synthesis ===<br /> <br /> * write comments here <br /> <br /> === Biotin synthesis ===<br /> <br /> * write comments here<br /> <br /> &lt;br/&gt;<br /> <br /> == Other pathways ==<br /> <br /> === Cellwall ===<br /> In the reaction catalysed by MurE, Lysine is added as the third residue of the stempeptide. This is incorrect - In Bacillus subtilis this is mese-diaminopimelic acid (as in E. coli). For refs see eg Scheffers and Pinho, MMBR 2005, 585; or Foster and Popham, Chapter 4 p 21, in Bacillus subtilis and its closest relatives, 2002 ASM Press (ed Sonenshein).<br /> *write comments here<br /> <br /> === Murein recycling ===<br /> <br /> *write comments here<br /> <br /> === Stress response ===<br /> <br /> * write comments here<br /> <br /> === Phosphorelay ===<br /> * In the interaction between KipI and KipA, that prevents the complex between KinA and KipI, KinA should be released from the complex. This has to be added to the diagram.<br /> <br /> === Sulfate assimilation ===<br /> <br /> *write comments here<br /> <br /> === tRNA charging ===<br /> <br /> * write comments here<br /> <br /> === Biofilm formation ===<br /> <br /> * SlrR bind SinR, according to Losick {{PubMed|20351052}}<br /> <br /> === Protein secretion ===<br /> <br /> * write comments here</div>

Scheffers