MyHits: a new interactive resource for protein annotation and domain identification
1 Swiss Institute of Bioinformatics (SIB), CH-1066 Epalinges/Lausanne, Switzerland and 2 Office of Information Technology, Ludwig Institute for Cancer Research, UNIL-BEP, CH-1015 Lausanne, Switzerland
* To whom correspondence should be addressed. Tel: +41 21 692 5915; Fax: +41 21 692 5945; Email: Marco.Pagni{at}isb-sib.ch
Received February 13, 2004; Revised and Accepted May 4, 2004
The MyHits web server (http://myhits.isb-sib.ch) is a new integrated service dedicated to the annotation of protein sequences and to the analysis of their domains and signatures. Guest users can use the system anonymously, with full access to (i) standard bioinformatics programs (e.g. PSI-BLAST, ClustalW, T-Coffee, Jalview); (ii) a large number of protein sequence databases, including standard (Swiss-Prot, TrEMBL) and locally developed databases (splice variants); (iii) databases of protein motifs (Prosite, Interpro); (iv) a precomputed list of matches (‘hits’) between the sequence and motif databases. All databases are updated on a weekly basis and the hit list is kept up to date incrementally. The MyHits server also includes a new collection of tools to generate graphical representations of pairwise and multiple sequence alignments including their annotated features. Free registration enables users to upload their own sequences and motifs to private databases. These are then made available through the same web interface and the same set of analytical tools. Registered users can manage their own sequences and annotations using only web tools and freeze their data in their private database for publication purposes.
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated.
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  R. M. Wanner, D. Castor, C. Guthlein, E. C. Bottger, B. Springer, and J. Jiricny The Uracil DNA Glycosylase UdgB of Mycobacterium smegmatis Protects the Organism from the Mutagenic Effects of Cytosine and Adenine Deamination J. Bacteriol., October 15, 2009; 191(20): 6312 - 6319. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. Ghosh, K. Chakrabarti, and D. Chattopadhyay Cloning of feather-degrading minor extracellular protease from Bacillus cereus DCUW: dissection of the structural domains Microbiology, June 1, 2009; 155(6): 2049 - 2057. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 U. H. WEIDLE, V. EVTIMOVA, S. ALBERTI, E. GUERRA, N. FERSIS, and S. KAUL Cell Growth Stimulation by CRASH, an Asparaginase-like Protein Overexpressed in Human Tumors and Metastatic Breast Cancers Anticancer Res, April 1, 2009; 29(4): 951 - 963. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. K. Bergfeld, H. Claus, N. K. Lorenzen, F. Spielmann, U. Vogel, and M. Muhlenhoff The Polysialic Acid-specific O-Acetyltransferase OatC from Neisseria meningitidis Serogroup C Evolved Apart from Other Bacterial Sialate O-Acetyltransferases J. Biol. Chem., January 2, 2009; 284(1): 6 - 16. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. K. Broholm, S. Tahtiharju, R. A. E. Laitinen, V. A. Albert, T. H. Teeri, and P. Elomaa A TCP domain transcription factor controls flower type specification along the radial axis of the Gerbera (Asteraceae) inflorescence PNAS, July 1, 2008; 105(26): 9117 - 9122. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. Haase, A. Cabrera, C. Langer, M. Treeck, N. Struck, S. Herrmann, P. W. Jansen, I. Bruchhaus, A. Bachmann, S. Dias, et al. Characterization of a Conserved Rhoptry-Associated Leucine Zipper-Like Protein in the Malaria Parasite Plasmodium falciparum Infect. Immun., March 1, 2008; 76(3): 879 - 887. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J.-H. Lee, W. Terzaghi, G. Gusmaroli, J.-B. F. Charron, H.-J. Yoon, H. Chen, Y. J. He, Y. Xiong, and X. W. Deng Characterization of Arabidopsis and Rice DWD Proteins and Their Roles as Substrate Receptors for CUL4-RING E3 Ubiquitin Ligases PLANT CELL, January 1, 2008; 20(1): 152 - 167. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Yan, S. Stolz, A. Chetelat, P. Reymond, M. Pagni, L. Dubugnon, and E. E. Farmer A Downstream Mediator in the Growth Repression Limb of the Jasmonate Pathway PLANT CELL, August 1, 2007; 19(8): 2470 - 2483. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. Pagni, V. Ioannidis, L. Cerutti, M. Zahn-Zabal, C. V. Jongeneel, J. Hau, O. Martin, D. Kuznetsov, and L. Falquet MyHits: improvements to an interactive resource for analyzing protein sequences Nucleic Acids Res., July 13, 2007; 35(suppl_2): W433 - W437. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 O. V. Mavrodi, D. V. Mavrodi, D. M. Weller, and L. S. Thomashow Role of ptsP, orfT, and sss Recombinase Genes in Root Colonization by Pseudomonas fluorescens Q8r1-96 Appl. Envir. Microbiol., November 1, 2006; 72(11): 7111 - 7122. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
H. E. Mohamed and W. F. J. Vermaas Sll0254 (CrtLdiox) Is a Bifunctional Lycopene Cyclase/Dioxygenase in Cyanobacteria Producing Myxoxanthophyll J. Bacteriol., May 1, 2006; 188(9): 3337 - 3344. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 R. Salavati, N. L. Ernst, J. O'Rear, T. Gilliam, S. Tarun Jr., and K. Stuart KREPA4, an RNA binding protein essential for editosome integrity and survival of Trypanosoma brucei RNA, May 1, 2006; 12(5): 819 - 831. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
O. V. Mavrodi, D. V. Mavrodi, A. A. Park, D. M. Weller, and L. S. Thomashow The role of dsbA in colonization of the wheat rhizosphere by Pseudomonas fluorescens Q8r1-96. Microbiology, March 1, 2006; 152(Pt 3): 863 - 872. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. H. J. Cordes and G. J. Binford Lateral gene transfer of a dermonecrotic toxin between spiders and bacteria Bioinformatics, February 1, 2006; 22(3): 264 - 268. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 V. Aspehaug, A. B. Mikalsen, M. Snow, E. Biering, and S. Villoing Characterization of the Infectious Salmon Anemia Virus Fusion Protein J. Virol., October 1, 2005; 79(19): 12544 - 12553. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B. R. Landsteiner, M. R. Olson, and R. Rutherford Current Comparative Table (CCT) automates customized searches of dynamic biological databases Nucleic Acids Res., July 1, 2005; 33(suppl_2): W770 - W773. [Abstract] [Full Text] [PDF]
|
|