Related Experiment Video
Updated: Aug 29, 2025
06:50
Author Spotlight: A Computational Approach to Decipher Amino Acid Preferences in Multispecific Protein-Protein Interactions
Published on: January 26, 2024
2.0K
C10Pred: A First Machine Learning Based Tool to Predict C10 Family Cysteine Peptidases Using Sequence-Derived
Adeel Malik1, Nitin Mahajan2, Tanveer Ali Dar3
1Institute of Intelligence Informatics Technology, Sangmyung University, Seoul 03016, Korea.
International Journal of Molecular Sciences
|September 9, 2022
Summary
A new tool, C10Pred, accurately predicts C10 peptidases, which are key virulence factors in bacteria like Streptococcus pyogenes. This SVM-based model aids in classifying novel streptopain-like proteins.
Area of Science:
- Microbiology
- Biochemistry
- Bioinformatics
Background:
- Streptococcus pyogenes (group A Streptococcus, GAS) causes severe diseases.
- Streptopain, a C10 family cysteine peptidase, is a critical GAS virulence factor.
- Increasing genomic data necessitates better classification of bacterial peptidases.
Purpose of the Study:
- To develop a novel computational tool for predicting C10 family peptidases.
- To address challenges in classifying newly identified streptopain-like sequences.
- To improve the identification of bacterial virulence factors.
Main Methods:
- Developed C10Pred, a support vector machine (SVM) based predictor.
- Utilized sequence-derived optimal features for prediction.
- Validated the model on an independent dataset.
Main Results:
- C10Pred achieved 92.7% overall accuracy.
- The predictor obtained a Matthews' correlation coefficient (MCC) of 0.855.
- Demonstrated high efficiency in predicting C10 enzymes.
Conclusions:
- C10Pred is an effective tool for classifying novel C10 family proteins.
- The predictor aids in understanding bacterial virulence mechanisms.
- Facilitates the study of streptopain-like enzymes in various bacterial species.
Related Concept Videos
02:47Protein Families
15.6K
Protein families are groups of homologous proteins; that is, they have similarities in amino acid sequences and three-dimensional structures. Protein families usually occur because of gene duplication, where an additional copy of a gene is inserted into the genome of an organism. Mutations that change the amino acids but still allow the protein to be properly synthesized, will lead to new protein family members. If these new proteins contain similar amino acids in key...
15.6K
01:33Peptide Identification Using Tandem Mass Spectrometry
6.7K
Tandem mass spectrometry, also known as MS/MS or MS2, is an analytical technique that employs two mass analyzers. Essentially it is a series of mass spectrometers that helps isolate a particular biomolecule and then helps study its chemical properties.
This technique helps gather information regarding the protein from which the peptide was obtained and to study the peptides’ amino acid sequence. Identifying peptides from a complex mixture is an important component of the growing field of...
This technique helps gather information regarding the protein from which the peptide was obtained and to study the peptides’ amino acid sequence. Identifying peptides from a complex mixture is an important component of the growing field of...
6.7K