HMMER🦋 @hmmer.bsky.social

[HMMER🦋 @hmmer.bsky.social @hmm3r]

📣 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.

[HMMER🦋 @hmmer.bsky.social @hmm3r]

HMMER has migrated to Bluesky 🦋! Follow us at our new home for the latest updates and news. Our X/Twitter account will remain as an archive, but all future announcements will be posted on Bluesky. Join us there! 🧬🔍

[HMMER🦋 @hmmer.bsky.social @hmm3r]

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

[HMMER🦋 @hmmer.bsky.social @hmm3r]

@hmm3r search services will be effected by this.

[EMBL-EBI @emblebi]

We've experienced a major incident at one of our data centres leading to many of our internal services (e.g. email, clusters) being shutdown. Most of our public services are operating as normal, but some data submission services may be impacted. More details to follow.

[EMBL-EBI Training @EBItraining]

Day 2 of structural bioinformatics and @robdfinn and @yalahowy cover fast, sensitive sequence searching with @hmm3r

[Rob Finn @robdfinn]

Great addition to include @ChEMBL targerts to the repertoire of sequence databases searchable by @hmm3r servers @emblebi

[HMMER🦋 @hmmer.bsky.social @hmm3r]

The August release of @hmm3r is out!
It now includes @ChEMBL as a searchable sequence database 🔎
Try it now at https://t.co/6jmzf4Y1S5

[HMMER🦋 @hmmer.bsky.social @hmm3r]

Try the latest version of @hmm3r with the brand new @uniprot data. You can submit your search here 🔎
https://t.co/PoMqcaVgpj
https://t.co/Cpz1gziDCy

[UniProt @uniprot]

UniProt 2018_07 is out now with 120,801,841 proteins! Headline article 'Ubiquitin ligation: new insight into mechanistic diversity' about related updates to MYCBP2 entries and UniProtKB news on https://t.co/P1JUpr23um.

[HMMER🦋 @hmmer.bsky.social @hmm3r]

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://t.co/kRveSCErmN

This visualisation uses this library https://t.co/rusEbAijF2

[HMMER🦋 @hmmer.bsky.social @hmm3r]

@KVittingSeerup @GencodeGenes No threshold will suit everyone and we apologise for the impact in this case. We will, however, continue to monitor these service limits and look for ways to permit longer queries. 2/2

[HMMER🦋 @hmmer.bsky.social @hmm3r]

@KVittingSeerup @GencodeGenes We set a limit on length of submitted seq, and a max search time, for performance and stability reasons. Recently we had to revise this as we noticed increased instances of searches taking too long to complete. Previous limit was set when sequence databases were much smaller. 1/2

[HMMER🦋 @hmmer.bsky.social @hmm3r]

Try the latest version of @hmm3r with the new @uniprot data. You can submit your search here 🔎
https://t.co/kRveSCErmN
https://t.co/nIASq2cOsm

[UniProt @uniprot]

UniProt release 2018_06 is out now with 116,587,823 proteins! Read the headline article 'Neuronal express mRNA delivery service' about updates to related Rat and Drosophila entries and other news on https://t.co/jwcknzLXFX.

[HMMER🦋 @hmmer.bsky.social @hmm3r]

🚨 @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.

[HMMER🦋 @hmmer.bsky.social @hmm3r]

@hmm3r website now makes available @ensembl release 92 and @ensemblgenomes release 39. Try searching these databases now at https://t.co/kRveSCErmN

[Protein Data Bank @PDBeurope]

New search features at PDBe include:
◦ Sequence searching with Phmmer (@hmm3r)
◦ Advanced searching (and/not/or) over many more data items, including lots of #cryoEM data
◦ 3D vis withLiteMol directly from the search results
https://t.co/VPeoliRwWk

[HMMER🦋 @hmmer.bsky.social @hmm3r]

Try the latest version of @hmm3r with the new @uniprot data. You can submit your search here 🔎
https://t.co/kRveSCErmN
https://t.co/G2ig3oZeZH

[UniProt @uniprot]

Release 2018_05 now out with 116,236,302 proteins! Read headline article 'Selenium vs. Sulfur: and the winner is...' about related updates to GPX4 entries and UniProt release news at https://t.co/QXlWiE4Su5.

[HMMER🦋 @hmmer.bsky.social @hmm3r]

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://t.co/kRveSCErmN

[HMMER🦋 @hmmer.bsky.social @hmm3r]

📢 With our newest release, you can now search the TreeFam database. Try it here https://t.co/ezTB1W82eF and select the “TreeFam” option. https://t.co/ikX7yoCAzE

[HMMER🦋 @hmmer.bsky.social @hmm3r]

You can try the latest version of @hmm3r with the new @uniprot data.
Give it a go at https://t.co/kRveSCErmN
https://t.co/UJ1EUII1zd

[UniProt @uniprot]

Did you check out the 2018_04 UniProt release last week? 115,316,915 proteins and a headline article about 'The Matrix (enzymes) Reloaded'. Read more on https://t.co/aqiHZhs5ID.

[HMMER🦋 @hmmer.bsky.social @hmm3r]

@FayeWang_CAS You should check with the GeneWise team if files output by hmmbuild are supported in their tool. Have a look here https://t.co/nUcsa360co, you can contact them by clicking on the “contact us” or “support” links.