Difference between revisions of "Sandbox"

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(4. Lifestyles)
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'''All genes are grouped in one or more categories. These categories help to identify genes/proteins with common function, regulation or properties.
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To see additional subcategories, please go to the pages for the six top-level categories.
 
 
 
'''
 
==1. [[Cellular processes]]==
 
* 1.1. Cell envelope and cell division
 
** 1.1.1. [[Cell wall synthesis]]
 
** 1.1.2. [[Cell shape]]
 
** 1.1.3. [[Cell wall degradation/ turnover]]
 
** 1.1.4. [[Capsule biosynthesis and degradation]]
 
** 1.1.5. [[Cell wall/ other]]
 
** 1.1.6. [[Membrane dynamics]]
 
** 1.1.7. [[Cell division]]
 
* 1.2. Transporters
 
** 1.2.1. [[ABC transporters]]
 
** 1.2.2. [[Phosphotransferase systems]]
 
** 1.2.3. [[Transporters/ other]]
 
* 1.3. Homeostasis
 
** 1.3.1. [[Metal ion homeostasis (K, Na, Ca, Mg)]]
 
** 1.3.2. [[Trace metal homeostasis (Cu, Zn, Ni, Mn, Mo)]]
 
** 1.3.3. [[Acquisition of iron]]
 
** 1.3.4. [[pH homeostasis]]
 
 
 
==2. [[Metabolism]]==
 
* 2.1. Electron transport and ATP synthesis
 
** 2.1.1. [[Regulators of electron transport]]
 
** 2.1.2. [[Respiration]]
 
** 2.1.3. [[Electron transport/ other]]
 
** 2.1.4. [[ATP synthesis]]
 
* 2.2. Carbon metabolism
 
** 2.2.1. [[Carbon core metabolism]]
 
** 2.2.2. [[Utilization of specific carbon sources]]
 
* 2.3. Amino acid/ nitrogen metabolism
 
** 2.3.1. [[Biosynthesis/ acquisition of amino acids]]
 
** 2.3.2. [[Utilization of amino acids]]
 
** 2.3.3. [[Utilization of nitrogen sources other than amino acids]]
 
** 2.3.4. [[Putative amino acid transporter]]
 
* 2.4. Lipid metabolism
 
** 2.4.1. [[Utilization of lipids]]
 
** 2.4.2. [[Biosynthesis of lipids]]
 
** 2.4.3. [[Lipid metabolism/ other]]
 
* 2.5. Nucleotide metabolism
 
** 2.5.1. [[Utilization of nucleotides]]
 
** 2.5.2. [[Biosynthesis/ acquisition of nucleotides]]
 
** 2.5.3. [[Metabolism of signalling nucleotides]]
 
** 2.5.4. [[Nucleotide metabolism/ other]]
 
* 2.6. Additional metabolic pathways
 
** 2.6.1. [[Biosynthesis of cell wall components]]
 
** 2.6.2. [[Biosynthesis of cofactors]]
 
** 2.6.3. [[Phosphate metabolism]]
 
** 2.6.4. [[Sulfur metabolism]]
 
** 2.6.5. [[Iron metabolism]]
 
** 2.6.6. [[Miscellaneous metabolic pathways]]
 
 
 
==3. [[Information processing]]==
 
* 3.1. Genetics
 
** 3.1.1. [[DNA replication]]
 
** 3.1.2. [[DNA condensation/ segregation]]
 
** 3.1.3. [[DNA restriction/ modification]]
 
** 3.1.4. [[DNA repair/ recombination]]
 
** 3.1.5. [[Genetic competence]]
 
** 3.1.6. [[Genetics/ other]]
 
* 3.2. RNA synthesis and degradation
 
** 3.2.1. [[Transcription]]
 
** 3.2.2. [[RNA chaperones]]
 
** 3.2.3. [[DEAD-box RNA helicases]]
 
** 3.2.4. [[RNases]]
 
* 3.3. Protein synthesis, modification and degradation
 
** 3.3.1. [[Translation]]
 
** 3.3.2. [[Chaperones/ protein folding]]
 
** 3.3.3. [[Protein modification]]
 
** 3.3.4. [[Protein secretion]]
 
** 3.3.5. [[Proteolysis]]
 
* 3.4. Regulation of gene expression
 
** 3.4.1. [[Sigma factors and their control]]
 
**''' 3.4.2. [[Two-component regulatory systems and their control]]'''
 
**''' 3.4.3. [[DNA binding transcription factors and their control]]'''
 
** 3.4.4. [[Trigger enzymes]]
 
**''' 3.4.5. [[PRD-type regulators]]'''
 
** 3.4.6. [[RNA binding regulators]]
 
 
 
 
 
==4. [[Lifestyles]]==
 
* 4.1. Exponential and early post-exponential lifestyles
 
** 4.1.1. [[Motility and chemotaxis]]
 
** 4.1.2. [[Biofilm formation]]
 
** 4.1.3. [[Genetic competence]]
 
**''' 4.1.4. [[Transition state regulators]]'''
 
**''' 4.1.5. [[Quorum sensing]]'''
 
* 4.2. Sporulation and Germination
 
** 4.2.1. [[Sporulation proteins]]
 
** 4.2.2. [[Phosphorelay]]
 
** 4.2.3. [[Sporulation/ other]]
 
** 4.2.4. [[Germination]]
 
* 4.3. Coping with stress
 
** 4.3.1. [[General stress proteins (controlled by SigB)]]
 
** 4.3.2. [[Cell envelope stress proteins (controlled by SigM, W, X, Y)]]
 
** 4.3.3. [[Acid stress proteins (controlled by YvrI-YvrHa)]]
 
** 4.3.4. [[Heat shock proteins]]
 
** 4.3.5. [[Cold stress proteins]]
 
** 4.3.6. [[Coping with hyper-osmotic stress]]
 
** 4.3.7. [[Coping with hypo-osmotic stress]]
 
** 4.3.8. [[Resistance against oxidative and electrophile stress]]
 
** 4.3.9. [[Resistance against other toxic compounds (nitric oxide, phenolic acids, flavonoids, oxalate)]]
 
** 4.3.10.[[ Resistance against toxic metals]]
 
** 4.3.11.[[ Resistance against toxins/ antibiotics]]
 
** 4.3.12.[[ Biosynthesis of antibacterial compounds]]
 
** 4.3.13.[[ Toxins, antitoxins and immunity against toxins]]
 
* 4.4. [[Lifestyles/ miscellaneous]]
 
 
 
==5. [[Prophages and mobile genetic elements]]==
 
* 5.1. Prophages
 
** 5.1.1. [[PBSX prophage]]
 
** 5.1.2. [[SPß prophage]]
 
** 5.1.3. [[Skin element]]
 
** 5.1.4. [[Phage-related functions]]
 
* 5.2. [[Mobile genetic elements]]
 
 
 
==6. [[Groups of genes]]==
 
* 6.1. [[Essential genes]]
 
* 6.2. [[Membrane proteins]]
 
* 6.3. [[GTP-binding proteins]]
 
* 6.4. [[Phosphoproteins]]
 
* 6.5. [[Universally conserved proteins]]
 
* 6.6. [[Poorly characterized/ putative enzymes]]
 
* 6.7. [[Proteins of unknown function]]
 
* 6.8. [[Short peptides]]
 
* 6.9. [[ncRNA]]
 
* 6.10. [[Pseudogenes]]
 
*''' 6.11. [[Regulators of core metabolism]]'''
 

Revision as of 20:30, 10 September 2011

Versuch