AFAL: a web service for profiling amino acids surrounding ligands in proteins.

ABSTRACT: With advancements in crystallographic technology and the increasing wealth of information populating structural databases, there is an increasing need for prediction tools based on spatial information that will support the characterization of proteins and protein-ligand interactions. Herein, a new web service is presented termed amino acid frequency around ligand (AFAL) for determining amino acids type and frequencies surrounding ligands within proteins deposited in the Protein Data Bank and for assessing the atoms and atom-ligand distances involved in each interaction (availability: http://structuralbio.utalca.cl/AFAL/index.html ). AFAL allows the user to define a wide variety of filtering criteria (protein family, source organism, resolution, sequence redundancy and distance) in order to

SUBMITTER: Arenas-Salinas M 

PROVIDER: S-EPMC4241235 | biostudies-literature | 2014 Nov

REPOSITORIES: biostudies-literature