Identifying Protein Domains with the Pfam Database

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Protein Sequence Analysis Using the MPI Bioinformatics Toolkit (2020, positive): “1A) to identify homologs of known structure and function, ECOD_F70 and Pfam-A to identify domains, and the proteome of Saccharomyces cerevisiae to identify its homologs in eukaryotes.”
The Pfam protein families database (2011, background): “For more background on how to query and use our web interface please refer to Coggill et al. (3).”
The HMMER Web Server for Protein Sequence Similarity Search (2017, background): “Swiss-Prot is a subset of UniProtKB that consists of only high-quality manually curated protein sequences that are usually experimentally characterized; Pfam is a collection of proﬁle HMMs of over 16,700 protein domains ( UNIT 2.5 ; Coggill, Finn, & Bateman, 2008).”
HMMER web server: 2015 update (2015, methodology): “The interactive iterative searching is analogous to the approach adopted during Pfam curation (26) that is performed using command-line tools.”