Protein Folding: Basics and Models

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Description

This lecture covers the fundamentals of protein folding, including the concept of free energy and the Flory-de Genues model. It explains the stability of the native state, the role of mutations, and the importance of co-evolution in proteins. The instructor discusses the approach of integrating equations of motion to find the most probable state and the significance of aligning sequences for computational methods.

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Related concepts (39)

Protein folding

Protein folding is the physical process where a protein chain is translated into its native three-dimensional structure, typically a "folded" conformation, by which the protein becomes biologically functional. Via an expeditious and reproducible process, a polypeptide folds into its characteristic three-dimensional structure from a random coil. Each protein exists first as an unfolded polypeptide or random coil after being translated from a sequence of mRNA into a linear chain of amino acids.

Protein domain

In molecular biology, a protein domain is a region of a protein's polypeptide chain that is self-stabilizing and that folds independently from the rest. Each domain forms a compact folded three-dimensional structure. Many proteins consist of several domains, and a domain may appear in a variety of different proteins. Molecular evolution uses domains as building blocks and these may be recombined in different arrangements to create proteins with different functions.

Computational mathematics

Computational mathematics is an area of mathematics devoted to the interaction between mathematics and computer computation. A large part of computational mathematics consists roughly of using mathematics for allowing and improving computer computation in areas of science and engineering where mathematics are useful. This involves in particular algorithm design, computational complexity, numerical methods and computer algebra. Computational mathematics refers also to the use of computers for mathematics itself.

Frameshift mutation

A frameshift mutation (also called a framing error or a reading frame shift) is a genetic mutation caused by indels (insertions or deletions) of a number of nucleotides in a DNA sequence that is not divisible by three. Due to the triplet nature of gene expression by codons, the insertion or deletion can change the reading frame (the grouping of the codons), resulting in a completely different translation from the original. The earlier in the sequence the deletion or insertion occurs, the more altered the protein.

Protein

Proteins are large biomolecules and macromolecules that comprise one or more long chains of amino acid residues. Proteins perform a vast array of functions within organisms, including catalysing metabolic reactions, DNA replication, responding to stimuli, providing structure to cells and organisms, and transporting molecules from one location to another. Proteins differ from one another primarily in their sequence of amino acids, which is dictated by the nucleotide sequence of their genes, and which usually results in protein folding into a specific 3D structure that determines its activity.