title: iMethyl-PseAAC: identification of protein methylation sites via a pseudo amino acid composition approach.
abstract: Before becoming the native proteins during the biosynthesis, their polypeptide chains created by ribosome's translating mRNA will undergo a series of "product-forming" steps, such as cutting, folding, and posttranslational modification (PTM). Knowledge of PTMs in proteins is crucial for dynamic proteome analysis of various human diseases and epigenetic inheritance. One of the most important PTMs is the Arg- or Lys-methylation that occurs on arginine or lysine, respectively. Given a protein, which site of its Arg (or Lys) can be methylated, and which site cannot? This is the first important problem for understanding the methylation mechanism and drug development in depth. With the avalanche of protein sequences generated in the postgenomic age, its urgency has become self-evident. To address this problem, we proposed a new predictor, called iMethyl-PseAAC. In the prediction system, a peptide sample was formulated by a 346-dimensional vector, formed by incorporating its physicochemical, sequence evolution, biochemical, and structural disorder information into the general form of pseudo amino acid composition. It was observed by the rigorous jackknife test and independent dataset test that iMethyl-PseAAC was superior to any of the existing predictors in this area.
authors: Computer Department, Jingdezhen Ceramic Institute, Jingdezhen 333046, China.
authors: Wang-Ren
authors: WR
authors: Qiu
authors: Computer Department, Jingdezhen Ceramic Institute, Jingdezhen 333046, China ; Information School, ZheJiang Textile & Fashion College, Ningbo 315211, China ; Gordon Life Science Institute, Boston, MA 02478, USA.
authors: Xuan
authors: 0000-0002-2184-6502
authors: X
authors: Xiao
authors: Computer Department, Jingdezhen Ceramic Institute, Jingdezhen 333046, China.
authors: Wei-Zhong
authors: WZ
authors: Lin
authors: Gordon Life Science Institute, Boston, MA 02478, USA ; Center of Excellence in Genomic Medicine Research (CEGMR), King Abdulaziz University, Jeddah 21589, Saudi Arabia.
authors: Kuo-Chen
authors: KC
authors: Chou
mesh_terms: D000465:Algorithms; D000595:Amino Acid Sequence; D001665:Binding Sites; D008745:Methylation; D008969:Molecular Sequence Data; D010363:Pattern Recognition, Automated / Q000379:methods*; D011485:Protein Binding; D011499:Protein Processing, Post-Translational / Q000502:physiology*; D011506:Proteins / Q000737:chemistry* / Q000378:metabolism*; D020539:Sequence Analysis, Protein / Q000379:methods*; D012984:Software
chemical_list: D011506:Proteins