Hits is a free database devoted to protein domains. It is also a collection of tools for the investigation of the relationships between protein sequences and motifs described on them. These motifs are defined by an heterogeneous collection of predictors, which currently includes regular expressions, generalized profiles and hidden Markov models.
|Sep 2013||Update mafft to version 7.058b|
|Sep 2013||Update hmmer3 to version 3.1b1|
|Aug 2013||Link to new TCoffee server|
|May 2011||New Web interface|
|Apr 2010||Add hmmer3 service.|
|Jun 2009||Add the CS-BLAST tool|
|Oct 2008||Update of the Jalview applet to release 2.4|
|Aug 2008||Add a text search to find sequence, motif or taxonomy matches.|
|Jul 2008||Add mkdom2 and hmmer services.|
|Jan 2008||A link to RAxML (phylogenetic tree) was added from the MSA hub.|
Profile Align was added to align a set of proteins onto an existent
Multiple Sequence Alignment without having to realign the whole
See Profile Align to use it, or from hubs.
A new tool to reformat your sequences and your multiple sequence alignments.
See Reformat to use it, or from hubs.
MyHits: improvements to an interactive resource for analyzing protein sequences.
Nucleic Acids Res. 2007 Jul; 35(Web Server issue):W433-7. [RIS]
|Dec 2006||The Dotlet applet has been updated to version 1.5. See changes for details.|
|Oct 2006||The pages Query by Motif and Query by Protein allow taxonomic restriction and give a new improved output where the user can send selected hits to the Protein Hub. A long user requested feature.|
|Sep 2006||The new version (2.1) of the Jalview applet has been modified and incorporated in MyHits. See changes for details.|
|Jun 2006||A new taxonomic restriction menu was added to the PSI-BLAST, Profile Search and Pattern Search pages where a user can select its own taxonomic id, e.g., 8782 for all birds or 37349 for Woolly Mammoth ;-).|
|May 2006||Several hardware/software problems impaired our service. We can only apologize for the inconvenience.|
|Jan 2006||MAFFT a very fast multiple alignment tool has been added.|
The JACOP server is now available to classify your proteins.
WARNING: This service is slow.
The splice variants of the TrEMBL database is no longer available, see details.
As a consequence tr_var will disappear soon from MyHits.
Two new pages are available: Translator to translate DNA sequences into protein
and Modify User to allow registered user to edit their information.
A new page describing the current status of the hit lists is available
from the Database menu. Some pages received minor updates.
|Aug 2004||HAMAP profiles and TIGRfam HMMs are available on the Motif scan server.|
The Motif Scan and Profile Search servers are available in BETA version.
Please report problems:
|Aug 2004||TrEMBL_new section was integrated into TrEMBL.|
|Jun 2004||Protein section of EnsEMBL was added.|
|Apr 2004||The server is working again with all databases.|
|Feb 2004||For technical reasons the server might be partially unusable until February 25. We are sorry for this inconvenience.|
|Feb 2004||It does not work yet.|