Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Multi-species Conserved Sequences

Multi-species Conserved Sequences

Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved DNA...

Enzyme-Linked Immunosorbent Assay

Enzyme-Linked Immunosorbent Assay

In 1971, Peter Perlman and Eva Engvall developed an Enzyme-linked immunosorbent assay (ELISA or EIA). ELISA differs from western blot in that the assays are conducted in microtiter plates or in vivo rather than on an absorbent membrane.
There are many different types of ELISAs, but they all involve an antibody molecule whose constant region binds an enzyme, leaving the variable region free to bind its specific antigen. Enzyme-substrate reaction allows the antigen to be visualized or quantified.

Turnover Number and Catalytic Efficiency

Turnover Number and Catalytic Efficiency

The turnover number of an enzyme is the maximum number of substrate molecules it can transform per unit time. Turnover numbers for most enzymes range from 1 to 1000 molecules per second. Catalase has the known highest turnover number, capable of converting up to 2.8×106 molecules of hydrogen peroxide into water and oxygen per second. Lysozyme has the lowest known turnover number of half a molecule per second.
Chymotrypsin is a pancreatic enzyme that breaks down proteins during digestion. The...

Environmental Applications of Microorganisms

Environmental Applications of Microorganisms

Microorganisms play a pivotal role in maintaining ecosystem balance by recycling essential elements such as carbon, nitrogen, and phosphorus, as well as supporting processes like bioremediation, wastewater treatment, and biofuel production.Microbes in Elemental CyclesIn the carbon cycle, microorganisms decompose organic matter, releasing carbon dioxide via aerobic respiration. This carbon dioxide is subsequently used by photosynthetic organisms to synthesize organic compounds, closing the...

Classification of Systems-I

Classification of Systems-I

Linearity is a system property characterized by a direct input-output relationship, combining homogeneity and additivity.
Homogeneity dictates that if an input x(t) is multiplied by a constant c, the output y(t) is multiplied by the same constant. Mathematically, this is expressed as:

Wilcoxon Signed-Ranks Test for Matched Pairs

Wilcoxon Signed-Ranks Test for Matched Pairs

The Wilcoxon signed-rank test for matched pairs evaluates the null hypothesis by combining the ranks of differences with their signs. It essentially tests whether the median of the differences in a population of matched pairs is zero. Since the test incorporates more information than the sign test, it generally yields more trustable conclusions. This test also does not require the data to follow a normal distribution, but two conditions must be met for it to be applicable: (1) the data must...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by

Same author

Exploring the development of safety culture among physicians with text mining of patient safety reports: a retrospective study.

International journal for quality in health care : journal of the International Society for Quality in Health Care·2025

Same author

Exploring the development of safety culture among physicians with text mining of patient safety reports: a retrospective study.

International journal for quality in health care : journal of the International Society for Quality in Health Care·2024

Same author

Near-Infrared Photoluminescence Responses of Single-Walled Carbon Nanotubes Induced by Biomolecules Detected on a Microbead Surface.

ACS omega·2024

Same author

Impact of extended endocrine therapy for patients with risk factors for late recurrence in estrogen receptor-positive, human epidermal growth factor receptor 2-negative breast cancer after 5 years of endocrine therapy.

Breast cancer research and treatment·2024

Same author

Outer membrane barrier impairment by <i>envC</i> deletion reduces gut colonization of Crohn's disease pathobiont <i>Escherichia coli</i>.

Microbiology (Reading, England)·2024

Same author

Transient Poor R-wave Progression Associated with Asymptomatic Pneumothorax.

Internal medicine (Tokyo, Japan)·2024

Search research articles

Related Experiment Video

Updated: May 16, 2026

A Protocol for Computer-Based Protein Structure and Function Prediction

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

ECOH: an enzyme commission number predictor using mutual information and a support vector machine.

Yoshihiko Matsuta¹, Masahiro Ito, Yukako Tohsato

¹Department of Bioinformatics, College of Life Sciences, Ritsumeikan University, Shiga, Kusatsu 525-8577, Japan.

Bioinformatics (Oxford, England)

|December 11, 2012

Summary

A new method, Enzyme COmmission numbers Handler (ECOH), predicts enzyme commission (EC) numbers for unclassified reactions by analyzing substrate and product structures. This tool achieves high accuracy, aiding in enzyme function prediction.

More Related Videos

Quantification of Information Encoded by Gene Expression Levels During Lifespan Modulation Under Broad-range Dietary Restriction in C. elegans

Quantification of Information Encoded by Gene Expression Levels During Lifespan Modulation Under Broad-range Dietary Restriction in C. elegans

Published on: August 16, 2017

Related Experiment Videos

Last Updated: May 16, 2026

A Protocol for Computer-Based Protein Structure and Function Prediction

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

Quantification of Information Encoded by Gene Expression Levels During Lifespan Modulation Under Broad-range Dietary Restriction in C. elegans

Quantification of Information Encoded by Gene Expression Levels During Lifespan Modulation Under Broad-range Dietary Restriction in C. elegans

Published on: August 16, 2017

Area of Science:

Biochemistry
Bioinformatics
Enzymology

Background:

The enzyme commission (EC) number system classifies enzymatic reactions, but many lack official numbers due to insufficient assay data.
Predicting EC numbers for unclassified reactions is crucial for understanding enzyme function and metabolic pathways.

Purpose of the Study:

To develop a computational method for assigning EC numbers to enzymatic reactions lacking official classification.
To leverage structural similarities between substrates and products of classified and unclassified reactions.

Main Methods:

A novel method, Enzyme COmmission numbers Handler (ECOH), was developed.
ECOH utilizes a maximum common substructure algorithm, mutual information, and a support vector machine.
The method analyzes structural similarities of substrates and products to predict EC numbers.

Main Results:

ECOH achieved high prediction accuracy for the first three EC number digits: 86.1% sensitivity, 87.4% precision, and 99.8% accuracy.
The method successfully predicted classifications for 85 enzymatic reactions with multiple EC sub-subclasses.
ECOH demonstrated superior performance and flexibility compared to existing methods.

Conclusions:

ECOH is an effective tool for predicting EC numbers for unclassified enzymatic reactions.
The method's accuracy and flexibility make it valuable for predicting enzyme function and annotating biochemical pathways.