iMethyl-PseAAC: Identification of Protein Methylation Sites via a Pseudo Amino Acid Composition Approach

Year: 2014

Type: article

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.

Source: BioMed Research International

DOI: 10.1155/2014/947416

Authors: Wang-Ren Qiu, Xuan Xiao, Wei-Zhong Lin, Kuo-Chen Chou

Institutions: Jingdezhen Ceramic Institute, The Gordon Life Science Institute, Zhejiang Fashion Institute of Technology, King Abdulaziz University

Language: English

Topic: Machine Learning in Bioinformatics

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: hybrid

Estimated APC paid: $2,680

Funders: National Natural Science Foundation of China, Natural Science Foundation of Jiangxi Province, Education Department of Jiangxi Province

OpenAlex ID: W1995173448