Difference between revisions of "Main Page"

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<big>'''Paper of the month: November 2012'''</big>  
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<big>'''Paper of the month: December 2012'''</big>  
* [http://www.ncbi.nlm.nih.gov/pubmed/23086297 Watson and Fedor] identify the first ATP-responsive [[riboswitch]]. This [[riboswitch]] controls the expression of the ''[[ydaO]]'' gene and the ''[[ktrA]]-[[ktrB]]'' operon. Gene expression is decreased upon binding of ATP to the [[riboswitch]]. In consequence, the target genes are induced if the energy charge of the cell is low.
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* [http://www.ncbi.nlm.nih.gov/pubmed/23167435 Kim et al..] show how the ATP hydrolysis controls the global conformation of the [[SecA]] translocase and drives [[protein secretion]]. The intricate network of structural interactions, which couple local electrostatic changes during ATP hydrolysis to global conformational and dynamic changes in [[SecA]], form the foundation of the allosteric mechanochemistry that efficiently harnesses the chemical energy stored in ATP to drive complex mechanical processes.
* '''Relevant ''Subti''Wiki pages:'''  ''[[ydaO]]'', ''[[ydaO riboswitch]]'', ''[[riboswitch]]'', ''[[ktrA]]-[[ktrB]]''
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* '''Relevant ''Subti''Wiki pages:'''  ''[[SecA]]'', ''[[protein secretion]]''
<pubmed> 23086297 </pubmed>
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<pubmed> 23167435 </pubmed>
 
* [[Previous papers of the month]]
 
* [[Previous papers of the month]]
  

Revision as of 21:27, 7 December 2012

Welcome to SubtiWiki! - Bacillus subtilis annotation the "wiki" way!

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Contact: General Microbiology, University of Göttingen, send mail


Upcoming events:


New: Subtiwiki is now on Facebook - please give it a +1!



Now online: A description of SubtiWiki, SubtiPathways, and SubtInteract in the 2012 Database issue of Nucleic Acids Research

Ulrike Mäder, Arne G Schmeisky, Lope A Flórez, Jörg Stülke
SubtiWiki--a comprehensive community resource for the model organism Bacillus subtilis.
Nucleic Acids Res: 2012, 40(Database issue);D1278-87
[PubMed:22096228] [WorldCat.org] [DOI] (I p)



Paper of the month: December 2012

  • Kim et al.. show how the ATP hydrolysis controls the global conformation of the SecA translocase and drives protein secretion. The intricate network of structural interactions, which couple local electrostatic changes during ATP hydrolysis to global conformational and dynamic changes in SecA, form the foundation of the allosteric mechanochemistry that efficiently harnesses the chemical energy stored in ATP to drive complex mechanical processes.
  • Relevant SubtiWiki pages: SecA, protein secretion

Dorothy M Kim, Haiyan Zheng, Yuanpeng J Huang, Gaetano T Montelione, John F Hunt
ATPase active-site electrostatic interactions control the global conformation of the 100 kDa SecA translocase.
J Am Chem Soc: 2013, 135(8);2999-3010
[PubMed:23167435] [WorldCat.org] [DOI] (I p)


New procedure for account creation:

  • Due to massive spam attacks, we had to change our policy for the creation of accounts. If you want to create an account, just send me a mail. We will create the account for you as quickly as possible, then you can change your password. This does not affect existing accounts, which remain active.
  • Please remember that all members of the Bacillus community are invited to create accounts and to contribute to SubtiWiki!



News in SubtiWiki:

  • November 2012: updated Excel files that map all genes to categories and regulons as well as the general updated identity mapping of all genes were uploaded.
  • October 2012: the essential genes have been categorized
  • September 2012: 300 mutant strains available at the BGSC were added to the corresponding gene pages
  • August 2012: SubtiExpress, the new compagnon of SubtiWiki devoted to gene expression is online! Try it out!
  • April 2012: Links for expression data under 104 different conditions (based on Nicolas et al., 2012) have been added to the expression section of the individual gene pages
  • April 2011: SubtInteract, a presentation of protein-protein interactions in B. subtilis, is online!
  • December 2010: SubtiCellPublisher allows the conversion of CellDesigner diagrams to navigatable presentations in the style of SubtiPathways
  • December 2010: all genes are linked to regulons, and the pages of the regulons provide an overview on all genes that are members of this specific regulon.
  • December 2010: all genes/proteins are linked to categories, and the pages of the categories provide an overview on all genes/proteins that are members of this specific category.


Genes (examples) Additional pages
spo0A SubtiPathways
glnA Lists of genes, proteins and RNAs
rny Categories
psdA Regulons
pckA methods
dnaA metabolism
rnpA protein-protein interactions
sigB genome-wide analyses
ptkA list of plasmids
mreC labs working on Bacillus
ccpA the people behind SubtiWiki
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Publications describing SubtiWiki and SubtiPathways: