Red-algae Gracilaria spp. Water-soluble Protein Refinement and Its Amino
Acids Profiling: A Proteomic Study
Abstract
Gracilaria is a genus of red-algae found mainly in Asia. The population
of Gracilaria spread throughout Indonesia’s marine waters, especially in
coastal areas. To date, the unique protein expressions using proteomic
approach moreover in Central Java area, Indonesia is sporadic.
Nonetheless, there has been no report mentioned about Gracilaria spp.
amino acid sequences nor its characteristics. Based on the background
mentioned, we aimed to conduct protein characterization by using peptide
sequence analysis LC-HRMS. Liquid chromatography coupled with
high-resolution mass spectrometry (LC–HRMS) use has growing across
biomedical and environmental sciences, hence provides high accuracy for
the detection. We followed the LC-HRMS standard protocol, with optimized
precipitation standard. TCA/Aceton precipitation of protein were used as
protein purification, then the precipitate subjected for Trypsin
digestion. Result of protein analysis were described as protein
concentrations, molecular model, and peptide sequences. This experiment
showed four identified sequences derived from Rhodophyta database, there
are TKKILDK (845.5455 Da), TVKSLLTK (889.5717 Da), ILVKTLK (814.5761
Da), TGcGRSKR (921.4683 Da). This study uncovers peptide sequences for
Gracilaria spp. and its similarity with other red algae species along
with the function of whole peptide sequences. Furthermore, amino acid
models of secondary structure Hidden Markov Model(HMM) were provided to
support our findings.