Boseung Choi, Jae Kyoung Kim, and Grzegorz Rempala

Slides:

Advertisements

Similar presentations

ENERGY AND REACTIONS Chapter Eighteen: Energy and Reactions  18.1 Energy and Chemical Reactions  18.2 Chemical Reaction Systems  18.3 Nuclear.

Advertisements

ALL ABOUT ENZYMES POSTER

Identify and Investigate the role of enzymes.

Section 2.8—Speeding Up A Reaction

Chemical Reactions and Enzymes

Enzyme Action Lets speed things up. Catalysts Catalyst is a chemical that speeds up a reaction The catalyst never changes Never gets used up It lowers.

Enzymes – not just your run of the mill protein! Happiness for me is largely a matter of digestion -Lin Yutang.

Chemical Reactions 8 th 5.2 Rates of Chemical Reactions.

Reaction Rates. Rate of a Chemical Reaction: Is a measure of how quickly or slowly the reaction occurs (Science 10 Curriculum Sask Learning) To measure.

Explain how enzymes function as catalysts.

Chemical Reactions and Enzymes

Chapter 6.3: Enzyme Kinetics CHEM 7784 Biochemistry Professor Bensley.

1 Enzymes Enzymes Enzyme Action Factors Affecting Enzyme Action.

1 Enzymes Enzymes Factors Affecting Enzyme Action.

Enzymes.  Proteins play major roles in the cell, but none as important as making up enzymes.  Enzymes permit reactions to occur at rates of thousands.

Enzymes Proteins in Action. Enzymes are Proteins Most enzymes are globular proteins. Like all proteins, enzymes are made up of chains of amino acids.

Information Technology in the Natural Sciences Biology – Chemistry – Physics.

What Are Enzymes? Proteins, with complex 3-d shapes Have an active site which can bind a substrate (reactants)

ENZYMES Biological Puzzle Pieces. REMEMBER: What is a Catalyst? A chemical that increases the rate of chemical reactions without altering the products.

DAILY QUESTION November 4, List 5 factors that may affect the rate of a chemical reaction.

 Enzymes – are protein substances that are necessary for most of the chemical reactions that occur in living cells  Enzymes affect the rate or speed.

Molecular Biology.  Enzymes are globular proteins that work as catalysts  Catalysts speed up chemical reactions without being altered themselves  Enzymes.

Macromolecules Protein. Proteins Probably the most diverse group of macromolecules is the proteins.

Chemistry of Life Biology chapter 2.4. Enzymes (Proteins)  Enzymes are proteins that act as catalysts in nearly all metabolic processes (essential for.

Enzymes. What is an enzyme? Organic catalyst Protein molecule.

Enzymes. Enzymes are Catalysts Catalysts lower the activation energy of a reaction. Catalysts lower the activation energy of a reaction. Makes the reaction.

ENZYMES. WHAT is an enzyme? HOW do they work? THE BIG IDEA: –All enzymes are proteins. –It functions as a catalyst to SPEED UP a CHEMICAL REACTION in.

Enzymes All enzymes are proteins. Not all proteins are enzymes. Enzymes are catalysts. A catalyst is a substance which increases the rate of chemical reaction.

COLLISION THEORY. HOW REACTIONS HAPPEN Rate of reaction – How quickly a reaction happens. 1.Energy of the collision: Reactant must have enough energy.

Amino Acids, Proteins, and Enzymes

Section 4: Reaction Rates and Equilibrium

Enzymes Worksheet catalyst amino acids different function

Structure of Enzymes: All enzymes are tertiary globular proteins, where the protein chain is folded back on itself into a spherical or globular shape.

Enzymes Promote Chemical Reactions

Chemical Reactions and Enzymes

Lesson 9 – Enzymes and Reactions

Chemical Reactions and Enzymes

Chemical Reactions and Enzymes

Section 4: Reaction Rates and Equilibrium

What is an enzyme? Enzymes are proteins, which means they are organic.

Amino Acids, Proteins, and Enzymes

Reactions: How can I speed this up?

A catalyst lowers activation energy.

Lesson 2.4: Chemical Reactions & Enzymes

Enzymes Page 23.

Enzymes & Chemical Reactions

Structure and action of enzymes

Identify and Investigate the role of enzymes.

Enzyme Foldable What is an Enzyme? Parts of an Enzyme Enzyme Action

Enzymes (Page 579) Enzymes are Biological Catalysts

SECTION 2.4: ENZYMES.

Chapter 4: Enzymes and Energy. (Review)

(BIOC 231) Enzyme Kinetics

Chemical Reactions and Reaction Rates

Jae Kyoung Kim, Krešimir Josić, Matthew R. Bennett Biophysical Journal

Chemical Reactions and Enzymes

Changing Matter Living things are made of matter, which consists of a substance with a form. Changes constantly occur in living things. A physical change.

Chapter Eighteen: Energy and Reactions

Chapter Eighteen: Energy and Reactions

Enzymes (a special protein)

Enzyme Foldable What is an Enzyme? Parts of an Enzyme Enzyme Action

Identify and Investigate the role of enzymes.

2.5 Enzymes Understanding:

o They are mainly proteins o They are biological catalysts that speed up the rate of the biochemical reaction.

Action of Enzymes How Enzymes Work

Presentation transcript:

An estimation method for enzyme kinetic model parameters based on Bayesian approach Boseung Choi, Jae Kyoung Kim, and Grzegorz Rempala Korea University Sejong Campus, Korea Korea Advanced Institute of Science and Technology The Ohio State University OK. Thank you very much for this seminar. It is an honor to be here at MBI. My name is Boseng Choi. I came from Sejong, South Korea. You may hear the name of Seoul. It is capitol of Korea. Sejong is another new capital for government office. I hope Sejong city is similar to Washington D.C. Today, I will talk about another reduced model for enzyme kinetics. I focus on the statistical estimation method for the enzyme kinetics model. I think that you have better information about enzyme kinetics. I started this research one and half year ago. Before the day, I never hear enzyme kinetics. Jul. 31. 2018 JSM 2018

Enzyme kinetics Enzymes have been used as extremely specific catalysts in diverse industrial fields such as drug development, biofuel production, and food processing. The enzyme kinetics is one of the fascinating areas of study in chemical kinetics and chemical reactions that are catalyzed by enzymes. Enzymes are usually protein molecules that manipulate other molecules — the enzymes' substrates.

Example of enzyme kinetics The initial substrate concentration is much larger than the enzyme. The sum of enzyme and complex are same at all time point. Complex reaches steady state quickly. C

Deterministic reduced model (sQSSA; sQ) 𝑘 𝑓 and 𝑘 𝑏 are not identifiable. Reduction is essential to avoid the identifiability problem.

More accurate reduction (total QSSA; tQ) Another reduced model is total quasi steady state model. This model developed later than sQSSA model and have little attention for parameter estimation. tQSSA model use total substrate T. T is sum of substrate S and complex. We put this total substrate to the full model and solve this ODE for complex. And then we have new approximation model.

tQ model is accurate for all conditions

Gillespie algorithm (Kinetic Monte Carlo method) One of the most widely used method is Gillespie algorithm. In this method, the macroscopic reaction rates in det systems are converted to propensity functions by changing the concentration to the number of molecules. This propensity functions describe the chance of certain reaction occurs.

Stochastic MM enzyme kinetics model

Contact information Boseung Choi(cbskust@gmail.com / cbskust@korea.ac.kr )