Talk:SubtiPathways

Discovered something unusual in the diagrams? Please leave a comment in the corresponding section!

General comments about all diagrams

• There seem to be some compatibility problems using Google Chrome. Nonetheless, Mozilla Firefox, Netscape, Microsoft Explorer, Safari, and Opera are working properly.
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Carbon metabolism

Central carbon metabolism

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Utilization of different carbon sources

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Nitrogen and amino acid metabolism

Ammonium assimilation and glutamate metabolism (incl. glutamine and arginine)

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Alanine, glycine, serine

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Aspartate, asparagine

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Cysteine, methionine

• 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)
• Cystin-Aufnahme-Systeme mit aufnehmen: TcyP, TcyABC, TcyJKLMN (Jörg)

Histidine

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Isoleucine, valine, leucine

• Isoleucin-Abbau: Bcd und YwaA sind zwei unterschiedliche Reaktionen, Bcd geht mit NAD, nicht mit 2-KG (Jörg)

Lysine, threonine

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Phenylalanine, tyrosine, tryptophan

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Proline

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Lipid metabolism

Fatty acid and phospholipid biosynthesis

• The structure of PDGP is wrong (although the name, CDP-diacylglycerol, seems right). Wrong PubChem ID?
• The same applies for phosphatidylglycerol, L-serine, and others.

Fatty acid degradation

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Nucleotides

Gene regulation of nucleotides

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Nucleosides catabolism

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Purine metabolism

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Purine catabolism

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Purine salvage pathways

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Pyrimidine metabolism

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Metabolism of cofactors

CoA synthesis

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Folate biosynthesis

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Menaquinone

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Riboflavin and FAD synthesis

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Thiamin synthesis

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Other pathways

Cellwall

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Stress response

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Phosphorelay

• 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.

Sulfate assimilation

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tRNA charging

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Biofilm formation

• SlrR bind SinR, according to Losick PubMed