title: Predicting G-protein-coupled receptors families using different physiochemical properties and pseudo amino acid composition.
abstract: G-protein-coupled receptors (GPCRs) initiate signaling pathways via trimetric guanine nucleotide-binding proteins. GPCRs are classified based on their ligand-binding properties and molecular phylogenetic analyses. Nonetheless, these later analyses are in most case dependent on multiple sequence alignments, themselves dependent on human intervention and expertise. Alignment-free classifications of GPCR sequences, in addition to being unbiased, present many applications uncovering hidden physicochemical parameters shared among specific groups of receptors, to being used in automated workflows for large-scale molecular modeling applications. Current alignment-free classification methods, however, do not reach a full accuracy. This chapter discusses how GPCRs amino acid sequences can be classified using pseudo amino acid composition and multiscale energy representation of different physiochemical properties of amino acids. A hybrid feature extraction strategy is shown to be suitable to represent GPCRs and to be able to exploit GPCR amino acid sequence discrimination capability in spatial as well as transform domain. Classification strategies such as support vector machine and probabilistic neural network are then discussed in regards to GPCRs classification. The work of GPCR-Hybrid web predictor is also discussed.
authors: Department of Computer and Information Sciences, Pakistan Institute of Engineering and Applied Sciences (PIEAS), Islamabad, Pakistan. asif@pieas.edu.pk
authors: Zia-Ur
authors: ZU
authors: Rehman
authors: Muhammad Tayyeb
authors: MT
authors: Mirza
authors: Asifullah
authors: A
authors: Khan
authors: Henri
authors: H
authors: Xhaard
mesh_terms: D000595:Amino Acid Sequence; D000596:Amino Acids / Q000737:chemistry*; D000818:Animals; D006801:Humans; D008969:Molecular Sequence Data; D016571:Neural Networks, Computer; D010802:Phylogeny; D043562:Receptors, G-Protein-Coupled / Q000737:chemistry* / Q000145:classification; D016415:Sequence Alignment; D040681:Structural Homology, Protein; D060388:Support Vector Machine; D013816:Thermodynamics
chemical_list: D000596:Amino Acids; D043562:Receptors, G-Protein-Coupled