v2.4.1 series come with new and improved sequence, structure, and dynamics analysis features. See release notes for details.

Bakan A, Meireles LM, Bahar I ProDy: Protein Dynamics Inferred from Theory and Experiments
Bioinformatics 2011 27(11):1575-1577.

Bakan A, Dutta A, Mao W, Liu Y, Chennubhotla C, Lezon TR, Bahar I Evol and ProDy for Bridging Protein Sequence Evolution and Structural Dynamics
Bioinformatics 2014 30(18):2681-2683.

Zhang S, Krieger JM, Zhang Y, Kaya C, Kaynak B, Mikulska-Ruminska K, Doruker P, Li H, Bahar I ProDy 2.0: Increased scale and scope after 10 years of protein dynamics modelling with Python
Bioinformatics 2021 37(20):3657-3659.

Pfam Search¶

Pfam search application.

evol_search(query, **kwargs)[source]¶

Search Pfam with given query.

Parameters:	query – protein UniProt ID or sequence, a PDB identifier, or a sequence file, where sequence have no gaps and 12 or more characters

Sequence Search Options

Parameters:	search_b (bool) – search Pfam-B families skip_a (bool) – do not search Pfam-A families ga (bool) – use gathering threshold evalue (float) – e-value cutoff, must be less than 10.0 timeout (int) – timeout in seconds for blocking connection attempt, default is `60`

Output Options

Parameters:	outname (str) – name for output file, default is standard output delimiter (str) – delimiter for output data columns, default is `'\t'`