- Sequence Analysis
- 2ary Structure
- 3ary Structure
The following provides mandatory data concerning the provider of this website, obligations with regard to data protection, as well as other important legal references involving the Internet site of the MPI Bioinformatics Toolkit (http://toolkit.tuebingen.mpg.de) as required by German law.
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Responsible editors for the contents of the website of the MPI Bioinformatics Toolkit (http://toolkit.tuebingen.mpg.de) with regard to media law:
Dr. Vikram Alva Kullanja
MPI for Developmental Biology
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Insofar as you have decided to take advantage of a personalized service such as registering an account, subscribing to newsletter services or completing contact forms, the required personal data are stored.
As a rule, this includes your e-mail address, first and surname, as well as other data – depending on the type of offer. Your data are used only in order to provide you with the desired offer to your satisfaction and in order to respond to any inquiries. If you no longer wish to take advantage of a personalized service, your personal data will be deleted after you cancel your registration.
Your personal data will only be transmitted to government organizations and authorities in legally required cases and/or for prosecution in the event of attacks on our network infrastructure. Your personal data are not provided to third parties for any other purpose.
Insofar as you have not objected, the following data are being recorded by our central server and included in the usage statistics.
For technical reasons, our servers and applications save personal details upon your visit to our websites in their log files. However, these data are only used for the immediate provision of our services, for troubleshooting purposes or for attack prevention and are deleted automatically after a short period of time.
If you use our Toolkit for your research, please cite us. It helps us keep this service running for you.
Our paper on the new Toolkit is out: A Completely Reimplemented MPI Bioinformatics Toolkit with a New HHpred Server at its Core. Zimmermann L, Stephens A, Nam SZ, Rau D, Kübler J, Lozajic M, Gabler F, Söding J, Lupas AN, Alva V. J Mol Biol. 2017 Dec 16.
HHpred: the PDB_mmCIF70 DB is now built using Uniclust30 instead of Uniprot20. Additionally, we now also offer PDB_mmCIF30, containing fewer representatives.
HHpred: profile HMM DBs of six archaeal proteomes (Archaeoglobus fulgidus, Halobacterium jilantaiense, Methanocaldococcus jannaschii, Methanothermus fervidus, Pyrococcus horikoshii, and Sulfolobus solfataricus) are online.
In addition to nr50, we now also offer nr30 for PSI-BLAST, HMMER, and PatternSearch.
HHpred: the Uniclust30 DB is now available for query A3M generation.
HHblits: a new version of the Uniclust30 DB is online.
HHpred: profile HMM DBs of Fischerella muscicola, Frankia alni, Streptomyces scabiei, and Thermus aquaticus are online.
HHpred: profile HMM DBs of Aquifex aeolicus, Deinococcus radiodurans, Dictyostelium discoideum, Schizosaccharomyces pombe, and Thermus thermophilus are online.
HHpred: profile HMMs of the ECOD database (Grishin Lab) are online.
HHpred: HMM database of Giardia lamblia is online.
HHpred: HMM database of Physcomitrella patens is online.
HHpred: HMM databases of Brachypodium distachyon and Tetrahymena thermophila are online.
Our Quick2D tool for the annotation of protein secondary structural features is back.
HMM databases of Caenorhabitis elegans and Drosophila melanogaster are online.
HMM databases of the COG, KOG, SMART, and NCBI CD databases are online now.
Profile HMM databases of the human proteome and Chaetomium thermophilum are online.
Profile HMM database of Arabidopsis thaliana is online.
Profile HMM databases of many bacterial proteomes are online.
Profile HMM databases of Mycobacterium tuberculosis is now available for HHpred.
Release Notes: Welcome to the new version of the MPI Bioinformatics Toolkit
Dear Toolkit Users,
welcome to the new version of the MPI Bioinformatics Toolkit hosted at the Department of Protein Evolution, Max Planck Institute for Developmental Biology, Germany. The first version of the Toolkit was released in 2005 and has serviced over 2.5 million external queries to date. We had to rework the Toolkit entirely because of mounting software incompatibility with our computing infrastructure and also took this opportunity to improve some features and prune a few of the outdated and less-widely used tools. To allow an easy transition to the new Toolkit, we have retained the basic structure and UI features of the earlier version, and have added additional features, some of which are listed below, to enhance user experience.
We are going to bring back FRpred, HHomp, Quick2D, daTAA, and REPPER within the next few weeks. Additionally, we are going to offer many more proteome databases for HHpred over the next months and are also working on making the help pages more comprehensive.
The new Toolkit is still under active development and we invite you to send us your feature requests and bug reports (firstname.lastname@example.org ).
If you find our Toolkit useful for your research, please cite us (Alva et al., 2016) ; it helps us keep this service running for you.
Your Toolkit Team