Computational protocol: Analysis of rare variations reveals roles of amino acid residues in the N-terminal extracellular domain of nicotinic acetylcholine receptor (nAChR) alpha6 subunit in the functional expression of human alpha6*-nAChRs

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Protocol publication

[…] Human nAChR α (α1- α7, α9, α10) subunits or nAChR α6 subunits from various organisms were aligned using ClustalW and then edited for the purposes of presentation (Figure ). A homology model of the human nAChR α6 subunit modeled on the 3-D coordinates of the muscle nAChR α subunit of Torpedo marmorata (PDB: 2BG9.A) [] was retrieved using SWISS-MODEL [] protein modeling server; and subsequently was rendered using UCSF Chimera (http://www.cgl.ucsf.edu/chimera/), a program for interactive visualization and analysis of molecular structures (Figure ). […]

Pipeline specifications

Software tools Clustal W, SWISS-MODEL, UCSF Chimera
Application Protein structure analysis
Organisms Homo sapiens
Chemicals Acetylcholine, Nicotine