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Published 20 hours ago • verified publisher icon soedinglab

secondary structure prediction by addss.pl

Open Rippei opened this issue 3 years ago • 2 comments

I installed hh-suite in linux x86_64 and have been successfully using the HHblits function.

I use uniclust30_2018_08 to generate the multiple sequence alignment file .a3m. Then use .a3m file to search homologous sequences in pdb70.

Now I would like to use addss.pl to predict the secondary structure of the query by addss.pl query.a3m

But, I am having a trouble in getting blast to work. HHpath.pm notes that it requires the old version of blast. However, I cannot find the source to download and install it in my environment.

Could you help?

Rippei avatar Jul 24 '20 02:07 Rippei

the NCBI still hosts binaries for old blast here: https://ftp.ncbi.nlm.nih.gov/blast/executables/legacy.NOTSUPPORTED/2.2.26/

milot-mirdita avatar Aug 13 '20 13:08 milot-mirdita

Users have been asking this question very frequently. Maybe we should put the link to legacy psi-blast in the README.md or addss.pl file.

kad-ecoli avatar Aug 17 '20 23:08 kad-ecoli