HMMER

📣 We're pleased to announce the reintroduction of the taxonomy restriction feature. Sequence searches can now be restricted to specific taxonomic groups, allowing more control over which species are included in the results. #bioinformatics #hmmer #proteins

📣 We’re pleased to announce the release of jackhmmer. It’s now available for use, and we’d greatly value any feedback as we continue to improve the tool. www.ebi.ac.uk/Tools/hmmer/... Give it a try and share your thoughts! #bioinformatics #hmmer

📣 We will be transitioning to a new website architecture on May 20, 2025. We will not be running a parallel system, so you may have to make a few changes, especially if you are using the API.

Service will be interrupted tomorrow, Thursday 29th, 0700 - 1100 BST owing to planned infrastructure changes.

search services will be effected by this. https://x.com/emblebi/status/1091670896337698816

The August release of @hmm3r is out! It now includes @ChEMBL as a searchable sequence database 🔎 Try it now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer?seqdb=chembl

Try the latest version of @hmm3r with the brand new @uniprot data. You can submit your search here 🔎 https://www.ebi.ac.uk/Tools/hmmer/search https://x.com/uniprot/status/1019592114932416512

Ever had too much data in your taxonomy tree?🌳 Try the new fisheye mode in the latest release of @hmm3r (“taxonomy” tab in your results) here https://www.ebi.ac.uk/Tools/hmmer/search/phmmer This visualisation uses this library https://github.com/ProteinsWebTeam/taxonomy-visualisation

Try the latest version of @hmm3r with the new @uniprot data. You can submit your search here 🔎 https://www.ebi.ac.uk/Tools/hmmer/search/phmmer https://x.com/uniprot/status/1010190457895374849

🚨 @hmm3r website availability at risk on Saturday 9th June 🚨 Due to important system maintenance at the @emblebi, the Hmmer Website might become unavailable for some time tomorrow afternoon (UK time). 🚧 Sorry for the inconvenience.

website now makes available @ensembl release 92 and @ensemblgenomes release 39. Try searching these databases now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer

Try the latest version of @hmm3r with the new @uniprot data. You can submit your search here 🔎 https://www.ebi.ac.uk/Tools/hmmer/search/phmmer https://x.com/uniprot/status/999322111020814337

Are you experimenting with @BioSchemas? Have a look at the @hmm3r website. Pages are now annotated with structured data and result pages include current version of @BioSchemas annotations for protein, structures, and protein annotations. https://www.ebi.ac.uk/Tools/hmmer/search/phmmer

📢 With our newest release, you can now search the TreeFam database. Try it here https://www.ebi.ac.uk/Tools/hmmer/search/hmmscan and select the “TreeFam” option. http://www.treefam.org/

You can try the latest version of @hmm3r with the new @uniprot data. Give it a go at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer https://x.com/uniprot/status/991241316561489921

The latest version of the @hmm3r website now contains the latest release of @ensemblgenomes, version 38. Try it now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer

This data release is already included in the new release of the @hmm3r website. Search @uniprot release 2018_01 at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer https://x.com/uniprot/status/958736502808285184

📢 New version of the @hmm3r website available with MEROPS database version 12. Try it now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer

📢 New version of the @hmm3r website available with the new 2017_11 release from @uniprot (see https://x.com/uniprot/status/933374715615379456 …) Try it now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer

📢 New version of the @hmm3r website available with @CATHDatabase Gene3D version 16.0 Try it now at https://www.ebi.ac.uk/Tools/hmmer/search/hmmscan?hmmdb=gene3d

📢 New version of @hmm3r website available with the brand new 2017_10 release from @uniprot. Try it now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer

And the data is already available in the new version of the @hmm3r website! Search the latest @uniprot data now at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer https://x.com/uniprot/status/913704907303243776

🔐 Remember that the switch is happening today, during the next hours. If your script starts failing please check the URL you are using. https://x.com/hmm3r/status/910134236434305027

📢 The new version of the @hmm3r website is out. It now includes @ensembl 90 and @ensemblgenomes 37. Try it at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer

Some servers stopped overnight, causing searches to be unavailable this morning. Everything should be back to normal now, sorry about that.

In jackhmmer searches you now have the “unselect all” option for easier sequence selection across iterations. Try it https://www.ebi.ac.uk/Tools/hmmer/search/jackhmmer

Try the @hmm3r website here https://www.ebi.ac.uk/Tools/hmmer/search/phmmer …. The latest version includes @ensembl release 89 and @ensemblgenomes release 36.

New @uniprot release, and the data is already available to search from in our latest @hmm3r release. give it a go at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer https://x.com/uniprot/status/882621769001185280

Give the new version of @hmm3r a go at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer. Now with the latest @uniprot June 2017 release

Try out hmmscan on the @hmm3r website at https://www.ebi.ac.uk/Tools/hmmer/search/hmmscan Gene3D results are now post-processed w/ @CATHDatabase's cath-resolve-hits

Try the @hmm3r website here https://www.ebi.ac.uk/Tools/hmmer/search/phmmer. The latest version includes @ensembl release 88 and @ensemblgenomes release 35.

May version of @hmm3r is out! Including @uniprot data version 2017_05. Try it at https://www.ebi.ac.uk/Tools/hmmer/

New in @hmm3r: explore x-refs to @emblebi resources in your results. Data from @emblebies's EBI Search. Try it now https://www.ebi.ac.uk/Tools/hmmer/

New @hmm3r release: website redesigned following the new @emblebi visual guidelines ✨ Try it today at https://www.ebi.ac.uk/Tools/hmmer/

New in March release of @hmm3r: Integration of MEROPS (https://merops.sanger.ac.uk/) as supported seq database. Try it at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer

March version of @hmm3r is out! It includes @uniprot data version 2017_03. Try it at https://www.ebi.ac.uk/Tools/hmmer/search/phmmer

March version of @hmm3r released! Now with brand new ✨Pfam 31.0✨ from @Xfam_EBI https://x.com/Xfam_EBI/status/839483599506321408 Try it at https://www.ebi.ac.uk/Tools/hmmer/search/hmmscan

February version of @hmm3r website released, with latest version of @uniprot. Try it now at https://www.ebi.ac.uk/Tools/hmmer/ @emblebi @EBItraining

December version of @hmm3r released! New: 🔎 search in the @ensembl database available. Try it now @ https://www.ebi.ac.uk/Tools/hmmer/

December version of @hmm3r released! New: Pfam (@Xfam_EBI) 📍active sites📍 now included in the searches. Try it now @ https://www.ebi.ac.uk/Tools/hmmer/

Maintenance is over, we are back! 🎉 https://www.ebi.ac.uk/Tools/hmmer/ Sorry for the long disruption, everything should be working now.

It seems the @hmm3r website will still be down until at least the beginning of next week because of hardware issues. https://x.com/emblebi/status/771387415445508096

The @hmm3r website will be down later today due to essential maintenance 🚧. see https://x.com/emblebi/status/768815601758400512 We'll be back on August 30th.

HMMER website updated, with Pfam v30.0 (@Xfam_EBI), Ensembl Protists and Ensembl Plants (@ensemblgenomes) https://www.ebi.ac.uk/Tools/hmmer/

Apologies for the short notice: the website searches will be briefly unavailable this morning, 2nd May.

HMMER website back and and updated to @uniprot release 2016_02.

Owing to maintenance the website and searches will be offline this Thursday 18th from 0830 GMT. Apologies for any inconvenience.

The HMMER website has just been updated to the latest @uniprot release 2016_01. Also includes @ensemblgenomes plants as target database.

Come and see the live @HMMER demo #ismb2015 at 12:20pm, Wicklow Hall 2B (TT04).

The HMMER website has just been updated to the latest @uniprot release 2015_07!