In silico structural and phylogenetic analysis v1
Year: 2020
Type: preprint
Abstract: The nucleotide sequence of Coh01147, previously obtained from Cohnella sp. A01 (Genbank Accession No: QEV88423) was translated to the amino acids using Expasy translate tool (http://web.expasy.org/translate). The resulting protein sequencewas used for further in silico analysis of the Cohnella sp. A01 derived protease 1147 protein. The biochemical properties of the protein, including molecular weight, isoelectric point, instability index, aliphatic coefficient, and grand average of hydropathy (GRAVY), were calculated using Expasy ProtParam tool (http://web.expasy.org/protparam). The presence of putative signal peptide and the location of its cleavage site was predicted using SignalP 5.0 server (http://www.cbs.dtu.dk/services/SignalP). pFam (http://pfam.xfam.org/search) and MEROPS (http://MEROPS.sanger.ac.uk) databases were used for sequence alignment and identifying the peptidase family. The phylogenetic relationships of the protein sequence were analysed using ClustalW in MEGA 7 programs. Multiple alignments of the resulting protein family of protease 1147 (from MEROPS) was carried out using COBALT (https://www.ncbi.nlm.nih.gov/tools/cobalt/re_cobalt.cgi), and the conserved areas were determined using DNAMAN software (www.lynnon.com). BLOSUM62 substitution matrix and a gap penalty = 12 were utilised in the search.
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: green
OpenAlex ID: W4245118515