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With BAR 3.0 and a sequence you can annotate when possible: function (Gene Ontology), structure (Protein Data Bank), protein domains (Pfam). Also if your sequence falls into a cluster with a structural/some structural template/s we provide an alignment towards the template/templates based on the Cluster-HMM (HMM profile) that allows you to ...
PredictProtein (PP) is an automatic service that searches up-to-date public sequence databases, creates alignments, and predicts aspects of protein structure and function. Users send a protein sequence and receive a single file with results from database comparisons and prediction methods.
PSPredictor is a machine learning approach to predict proteins that phase separate, trained on a set of experimentally validated protein sequences in the LLPSDB database. [6] PSAP [7] 2021 PSAP is a random forest classifier to predict the probability of proteins to mediate phase separation.
The four search types phmmer, hmmsearch, hmmscan and jackhmmer are supported (see Programs). The search function accepts single sequences as well as sequence alignments or profile HMMs. [10] The search results are accompanied by a report on the taxonomic breakdown, and the domain organisation of the hits. Search results can then be filtered ...
Amyloidogenicity propensity predictor based on a machine learning approach through recursive feature selection and feed-forward neural networks, taking advantage of newly published sequences with experimental, in vitro, evidence of amyloid formation. sequence - Amyloidogenic regions ArchCandy [37] 2015 Download- BiSMM: Secondary structure-related
Protein function is a broad term: the roles of proteins range from catalysis of biochemical reactions to transport to signal transduction, and a single protein may play a role in multiple processes or cellular pathways. [1] Generally, function can be thought of as, "anything that happens to or through a protein". [1]
Similarly, Light-Attention uses machine learning methods to predict ten different common subcellular locations. [ 12 ] The first model to generalize protein subcellular localization to all cell line does so by leveraging images of subcellular landmark stains (i.e., nuclear, plasma membrane, and endoplasmic reticulum markers) across multiple ...
Algorithm and program for comparing primary biological sequence information, including DNA and protein sequences. Cross-platform: Public domain: National Center for Biotechnology Information: CP2K: Perform atomistic simulations of solid state, liquid, molecular and biological systems, written in Fortran 2003. Linux, macOS, Windows: GPL and LGPL