Metaclusters by DPCfam clustering of UniRef50 v 2017_07

Metaclusters obtained from the DPCfam clustering of UniRef50, v. 2017_07.
Metaclusters represent putative protein families automatically derived using the DPCfam method, as described in Unsupervised protein family classification by Density Peak clustering, Russo ET, 2020, PhD Thesis http://hdl.handle.net/20.500.11767/116345 . Supervisors: Alessandro Laio, Marco Punta.

Visit also https://dpcfam.areasciencepark.it/  to easily navigate the data.

FILES DESCRIPTION:

• metaclusters_xml.tar.gz Metaclusters' seeds, unaligned in an xml table. All metaclusters are listed. Metaclusters entries include also some statistical information about each MC (such as size, average length, low complexity fraction etc, ) and Pfam comparison (Dominant Architecture). A README file is included describing the data. A parser is included to transform XML data to space-separated tables. XML schema is included.
• metaclusters_msas.tar.gz Metsclusters' multiple sequence alignments, in fasta format. Only MCs with seeds with 1) more than 50 elements and 2) average length larger than 50 a.a.s are reported .
• metaclusters_hmms.tar.gz Metsclusters' profile-hmms. A ".hmm" file for each metacluser. Only MCs with seeds with 1) more than 50 elements and 2) average length larger than 50 a.a.s are reported .
• all_metaclusters_hmm.tar.gz Collctive metaclusters' profile-hmm.  A single .hmm file collecting all MC's profile-hmm. . Only MCs with seeds with 1) more than 50 elements and 2) average length larger than 50 a.a.s are reported 
• uniref50_annotated.xml.gz UniRef50 v.2017_07 database annotated with Pfam families and DPCfam metaclusters. A README file is included describing the data. A parser is included to transform XML data to space-separated tables. XML schema is included. XML schema is derived from uniprot's UniRef50 xml schema.