Nav: Home

Folding biomolecule model shows how form dictates function

September 13, 2017

Proteins are fundamental macromolecules for life, with a diversity of functions, like acting as channels through cellular walls, catalysers, DNA benders, etc. When it comes to these functions, what matters is the layout of the secondary branches, made up of each protein's amino acids, such as alanine, glutamine, arginine, phenylalanine and tyrosine. These are stabilised mainly by weak interactions-- such as hydrogen bonds, intramolecular interactions, and inter molecular dispersive forces, -- between the backbone and the lateral chain of their amino acids. In a new study published in EPJ D, Jorge González from the University of the Basque Country, in Leioa, Spain and colleagues have developed a theoretical method to calculate the most stable disposition that biomolecules try to adopt when they are together, or in close contact in cases where the bonding is weak. They also demonstrate that their model is consistent with our understanding of the same systems gained from experiments, such as spectroscopic analysis.

The sheer size of these molecules prevents correlation of the results of the configuration obtained for the isolated amino acids to the same amino acids constituting the secondary branches in the structure of proteins. Knowledge of the conformation adopted by the capped amino acids, authors believe, may be useful for the extrapolation of their properties to larger systems, like polypeptides or proteins.

The team first used molecular mechanics to identify the 3D conformation where the energy of the biomolecules would be the most stable. They then included quantum mechanics interactions in their model to better understand the structure and the vibrations of the various conformations together with their electron density. They then analysed the nature of intramolecular forces in each amino acid using bonding types like hydrogen bonds.

They found that the 15 most stable conformations studied had isolated capped amino acids whose structure resembles those found in proteins. However, they play a different role in the amino acids studied, depending on the character of their lateral chain.
-end-
Reference: J. González, R. Martínez, J. A. Fernández, and J. Millan, (2017), Conformational landscape of isolated capped amino acids: on the nature of non-covalent interactions , European Physical Journal D, DOI 10.1140/epjd/e2017-80187-5

Springer

Related Amino Acids Articles:

A unique amino acid for brain cancer therapy
Researchers discover potential application of amino acid taurine in photodynamic therapy for brain cancer.
Nickel: A greener route to fatty acids
Chemists designed a nickel catalyst that easily transforms petroleum feedstocks into valuable compounds like fatty acids.
Amino acids in diet could be key to starving cancer
Cutting out certain amino acids - the building blocks of proteins -- from the diet of mice slows tumor growth and prolongs survival, according to new research published in Nature.
How to brew high-value fatty acids with brewer's yeast
Researchers at Goethe University Frankfurt have succeeded in producing fatty acids in large quantities from sugar or waste containing sugar with the help of yeasts.
Diverse natural fatty acids follow 'Golden Mean'
Bioinformatics scientists at Friedrich Schiller University in Jena (Germany) have discovered that the number of theoretically possible fatty acids with the same chain length but different structures can be determined with the aid of the famous Fibonacci sequence.
Simple fats and amino acids to explain how life began
Life is a process that originated 3.5 billion years ago.
Newly revealed amino acid function could be used to boost antioxidant levels
A Japanese research team has become the first in the world to discover that 2-aminobutyric acid is closely involved in the metabolic regulation of the antioxidant glutathione, and that it can effectively raise levels of glutathione in the body when ingested.
An amino acid controls plants' breath
IBS plant scientists demonstrate that the amino acid L-methionine activates a calcium-channel regulating the opening and closing of tiny plant pores.
Genetic differences in amino acid metabolism are linked to a higher risk of diabetes
A study published today in the journal PLOS Medicine has identified the five genetic variants associated with higher levels of the branched-chain amino acids isoleucine, leucine and valine.
Withholding amino acid depletes blood stem cells, Stanford researchers say
A new study shows that a diet deficient in valine effectively depleted the blood stem cells in mice and made it possible to perform a blood stem cell transplantation on them.

Related Amino Acids Reading:

Amino Acids: Biochemistry and Nutrition
by Guoyao Wu (Author)

Amino acid biochemistry and nutrition spans a broad range of fields including biochemistry, metabolism, physiology, immunology, reproduction, pathology, and cell biology. In the last half-century, there have been many conceptual and technical advancements, from analysis of amino acids by high-performance liquid chromatography and mass spectrometry to molecular cloning of transporters for amino acids and small peptides. Amino Acids: Biochemistry and Nutrition presents comprehensive coverage of these scientific developments, providing a useful reference for students and researchers in... View Details


A Guide to Amino Acid and Protein Nutrition: Essential Amino Acid Solutions for Everyone (The EAASE Program)
by Dr. Robert Wolfe PhD (Author)

Now available for the first time on Kindle, the world's leading PhD expert on Amino Acid nutrition shares this comprehensive look into exciting new field of Amino Acid Nutrition! Dietary Essential Amino Acids (EAAs) are the fundamental building blocks of life as we know it. EAAs are the “active” components of dietary protein and as such are the only macronutrients required for survival, yet the benefits of optimal EAA nutrition are generally underappreciated. In this groundbreaking new book Dr. Wolfe shares the secrets to losing weight, correcting metabolic imbalances and enhancing... View Details


Heal Your Gut with Bone Broth: The Natural Way to get Minerals, Amino Acids, Gelatin and Other Vital Nutrients to Fix Your Digestion
by Robin Westen (Author)

"This is a needed and helpful antidote to the stresses of modern times that assault mental and physical health." -Publishers Weekly

A PROGRAM TO BALANCE DIGESTIVE HEALTH IN SEVEN DAYS USING TRADITIONAL QUICK-AND-EASY BONE BROTH REMEDIES


The key to a healthy, happy stomach starts with bone broth. Used by our ancestors for centuries, broth restores and promotes the healthy bacteria crucial for pain-free digestion. Heal Your Gut with Bone Broth unleashes these ancient, healing powers to conquer discomfort with a seven-day program,... View Details


The Healing Nutrients Within: Facts, Findings, and New Research on Amino Acids
by Eric R. Braverman (Author)

Explains how to use amino acids to achieve optimum health and describes their beneficial roles in fighting cancer, Alzheimer's disease, depression, heart disease, and more. View Details


Amino Acids in Therapy: A Guide to the Therapeutic Application of Protein Constituents
by Leon Chaitow D.O. N.D. (Author)

This comprehensive guide for health practitioners covers all aspects of amino acid therapy and lists conditions which are particularly responsive to such treatment. Includes information on:
Amino acid profiles
Why individual requirements differ
Amino acids and protein
Amino acids and the body cycles
Disorders of amino acid metabolism
Conditions suitable for amino acid therapy View Details


Heal with Amino Acids and Nutrients
by Ph.D., C.N.C Billie J. Sahley (Author), C.R.N.A., Ph.D. Katherine M. Birkner (Author)

Heal with Amino Acids and Nutrients A Self Help Guide for Common Health Problems Using Amino Acids and Natural Remedies -- New for 2014. Updated and Expanded 9th Edition -- Amino acids have the healing power to help you think better and stay healthy. Your brain and body cannot function without amino acids. This book explains . . . All about amino acids, the building blocks of protein in the brain and body How amino acids create neurotransmitters that control every thought, every mood, and every behavior Why you have amino acid deficiencies What amino acids you should use for stress, anxiety,... View Details


Thorsons Guide to Amino Acids
by Leon Chaitow (Author)

Current research is revealing new therapeutic potential in the use of amino acids supplements - with effects ranging from pain relief to appetite modification and mood alteration - and over the next few years such names as ornithine and phenylalanine may be as common as Vitamin C or zinc are to us now. This book explains what amino acids are, what they can do, and how to use them for maximum effect. View Details


Gaba the Anxiety Amino Acid
by Billie Jay Sahley (Author)

Dr Sahley's guide to using GABA for anxiety. View Details


Recharge Your Body and Mind with Amazing Amino Acids
by Dr. Daniel S. Smith D.C. (Author)

Our bodies' innate intelligent design uses amino acids to create the building blocks of life itself. Amino nutrients--an extraordinary nutritional approach to health--provide the synergy necessary for wellness and longevity. Now presented in a guide that everyone can understand, amino acids can finally be effectively integrated by one and all for optimum total health. SAMPLE CHAPTERS: Do You Need Amino Acid Supplements? Mood Disorders Emotional Eating, Carbohydrate Craving Chronic Emotional and Physical Pain Sleep New Frontiers: Mental Health, Medication Withdrawal, Diabetes, Optimal Health ... View Details


The Healing Power of Amino Acids: How to Boost Your Health with These Amazing New Supplements
by Leon Chaitow (Author)

Based on research this book illustrates the healing power and potential of the 20 amino acids from which we are made. It also discusses the ability of some of the amino acids to modify mood and behaviour such as stopping addiction to alcohol and reducing craving for sugar through their influence on the brain and nervous system. The author contends that in the 21st century widespread use will be made of amino acids in therapy and in the prevention of illness. A note to readers advises careful consideration to the nature of their particular health problem and to consult a compenent physician if... View Details

Best Science Podcasts 2017

We have hand picked the best science podcasts for 2017. Sit back and enjoy new science podcasts updated daily from your favorite science news services and scientists.
Now Playing: TED Radio Hour

Simple Solutions
Sometimes, the best solutions to complex problems are simple. But simple doesn't always mean easy. This hour, TED speakers describe the innovation and hard work that goes into achieving simplicity. Guests include designer Mileha Soneji, chef Sam Kass, sleep researcher Wendy Troxel, public health advocate Myriam Sidibe, and engineer Amos Winter.
Now Playing: Science for the People

#448 Pavlov (Rebroadcast)
This week, we're learning about the life and work of a groundbreaking physiologist whose work on learning and instinct is familiar worldwide, and almost universally misunderstood. We'll spend the hour with Daniel Todes, Ph.D, Professor of History of Medicine at The Johns Hopkins University, discussing his book "Ivan Pavlov: A Russian Life in Science."