Repository of Research and Investigative Information

Repository of Research and Investigative Information

Baqiyatallah University of Medical Sciences

PSSP: Protein splice site prediction algorithm using Bayesian approach

(2019) PSSP: Protein splice site prediction algorithm using Bayesian approach. Journal of Bioinformatics and Computational Biology. p. 18. ISSN 0219-7200

[img] Text
PSSP Protein splice site prediction algorithm using Bayesian approach.pdf

Download (1MB)

Official URL: http://apps.webofknowledge.com/InboundService.do?F...

Abstract

This study aimed to introduce an algorithm and identify intein motif and blocks involved in protein splicing, and explore the underlying methods in the development of detection of protein motifs. Inteins are mobile protein splicing elements capable of self-splicing post-translationally. They exist in viruses and bacteriophage, notwithstanding this broad phylogenetic distribution, all inteins apportion common structural features. A method was developed to predict intein in a raw sequence, using a ranking and scoring scheme based on amino acid theta value tables. This method aided in the identification and assessment of patterns characterizing the intein sequences. New intein conserved properties are revealed and the known ones are described and localized. We have computed the theta value of each amino acid at block A positions +1 to +13, block B positions 1 + 13 to 1+ 26 and block G positions -7 to +1 for the three categories. The consensus amino acids thus found are listed at the end of each row. We gave statistics for the distance between the blocks, block A to B, block B to F, and block F to G with the average being 66.1, 294, and 10.2 amino acids, respectively. The actual blocks A, B, and G of the one intein found in vacuolar membrane ATPase subunit, a precursor protein, are ranked 1. The results indicate all of the block sequences that are found in nine proteins are ranked at top of the list. The intein sequence is used to search the databases for intein-like proteins. Understanding the functional, structural, and dynamical aspects of inteins is important for intein engineering and the betterment of intein database.

Item Type: Article
Keywords: Protein splicing intein protein domain algorithm intein engineering motif correlated mutations residue contacts intein gene identification evolution subunit Biochemistry & Molecular Biology Computer Science Mathematical & Computational Biology
Divisions:
Page Range: p. 18
Journal or Publication Title: Journal of Bioinformatics and Computational Biology
Journal Index: ISI
Volume: 17
Number: 6
Identification Number: https://doi.org/10.1142/s0219720019500343
ISSN: 0219-7200
Depositing User: مهندس مهدی شریفی
URI: http://eprints.bmsu.ac.ir/id/eprint/2263

Actions (login required)

View Item View Item