Nucleic Acids Research Advance Access originally published online on November 28, 2006
Nucleic Acids Research 2007 35(Database issue):D386-D390; doi:10.1093/nar/gkl932
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Nucleic Acids Research, 2007, Vol. 35, Database issue D386-D390
© 2006 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
Articles |
MiST: a microbial signal transduction database
1 Joint Institute for Computational Sciences, The University of Tennessee–Oak Ridge National Laboratory Oak Ridge, TN 37831-6173, USA 2 Graduate School of Genome Science and Technology, The University of Tennessee–Oak Ridge National Laboratory Oak Ridge, TN 37831-6173, USA 3 Center for Bioinformatics and Computational Biology, School of Biology, Georgia Institute of Technology Atlanta, GA 30332-0230, USA
*To whom correspondence should be addressed. Tel: +1 865 974 7687; Fax: +865 576 4368; Email: ulrichle{at}ornl.gov
Received August 15, 2006. Revised October 12, 2006. Accepted October 13, 2006.
Signal transduction pathways control most cellular activities in living cells ranging from regulation of gene expression to fine-tuning enzymatic activity and controlling motile behavior in response to extracellular and intracellular signals. Because of their extreme sequence variability and extensive domain shuffling, signal transduction proteins are difficult to identify, and their current annotation in most leading databases is often incomplete or erroneous. To overcome this problem, we have developed the microbial signal transduction (MiST) database (http://genomics.ornl.gov/mist), a comprehensive library of the signal transduction proteins from completely sequenced bacterial and archaeal genomes. By searching for domain profiles that implicate a particular protein as participating in signal transduction, we have systematically identified 69 270 two- and one-component proteins in 365 bacterial and archaeal genomes. We have designed a user-friendly website to access and browse the predicted signal transduction proteins within various organisms. Further capabilities include gene/protein sequence retrieval, visualized domain architectures, interactive chromosomal views for exploring gene neighborhood, advanced querying options and cross-species comparison. Newly available, complete genomes are loaded into the database each month. MiST is the only comprehensive and up-to-date electronic catalog of the signaling machinery in microbial genomes.
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  J. Gu, Y. Wang, and T. Lilburn A Comparative Genomics, Network-Based Approach to Understanding Virulence in Vibrio cholerae J. Bacteriol., October 15, 2009; 191(20): 6262 - 6272. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. Briegel, D. R. Ortega, E. I. Tocheva, K. Wuichet, Z. Li, S. Chen, A. Muller, C. V. Iancu, G. E. Murphy, M. J. Dobro, et al. Universal architecture of bacterial chemoreceptor arrays PNAS, October 6, 2009; 106(40): 17181 - 17186. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. Lin, C. Zhang, K. Gibson, and Y. Rikihisa Analysis of complete genome sequence of Neorickettsia risticii: causative agent of Potomac horse fever Nucleic Acids Res., October 1, 2009; 37(18): 6076 - 6091. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. M. Beltramini, C. D. Mukhopadhyay, and V. Pancholi Modulation of Cell Wall Structure and Antimicrobial Susceptibility by a Staphylococcus aureus Eukaryote-Like Serine/Threonine Kinase and Phosphatase Infect. Immun., April 1, 2009; 77(4): 1406 - 1416. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Weigt, R. A. White, H. Szurmant, J. A. Hoch, and T. Hwa Identification of direct residue contacts in protein-protein interaction by message passing PNAS, January 6, 2009; 106(1): 67 - 72. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. L. Porter, M. A. J. Roberts, C. S. Manning, and J. P. Armitage A bifunctional kinase-phosphatase in bacterial chemotaxis PNAS, November 25, 2008; 105(47): 18531 - 18536. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. M. Khursigara, X. Wu, and S. Subramaniam Chemoreceptors in Caulobacter crescentus: Trimers of Receptor Dimers in a Partially Ordered Hexagonally Packed Array J. Bacteriol., October 15, 2008; 190(20): 6805 - 6810. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. R. Neunuebel and J. W. Golden The Anabaena sp. Strain PCC 7120 Gene all2874 Encodes a Diguanylate Cyclase and Is Required for Normal Heterocyst Development under High-Light Growth Conditions J. Bacteriol., October 15, 2008; 190(20): 6829 - 6836. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
I. Anderson, J. Rodriguez, D. Susanti, I. Porat, C. Reich, L. E. Ulrich, J. G. Elkins, K. Mavromatis, A. Lykidis, E. Kim, et al. Genome Sequence of Thermofilum pendens Reveals an Exceptional Loss of Biosynthetic Pathways without Genome Reduction J. Bacteriol., April 15, 2008; 190(8): 2957 - 2965. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 K. Borziak and I. B. Zhulin FIST: a sensory domain for diverse signal transduction pathways in prokaryotes and ubiquitin signaling in eukaryotes Bioinformatics, October 1, 2007; 23(19): 2518 - 2521. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. P. Alexander and I. B. Zhulin From the Cover: Evolutionary genomics reveals conserved structural determinants of signaling and adaptation in microbial chemoreceptors PNAS, February 20, 2007; 104(8): 2885 - 2890. [Abstract] [Full Text] [PDF]
|
|