[Method for calculation of low-energy conformations of alpha-helical pairs of globular proteins]. 1981

V V Solov'ev, and H A Kolchanov

The computer model of folding of two alpha-helices of globular proteins was developed. The radicals of amino acids were approximated by spheres with centers located in C beta-atoms. The functional of energy took into account the hydrophobic interactions of alpha-helices, electrostatic contacts of charged and polar side groups of amino acid, Van der Waals' interactions. The conformations with minimum energies of two-helical superstructures G--H from alpha- and beta-chains of horse hemoglobin, sperm whale myoglobin, and erythrocruorin were computed. They have mean deviation 0.7--1.8 A from native conformations of these proteins. Hence, at the self-organization process alpha-helices firstly are "roughly" oriented by hydrophobic interactions, but the choice of stable conformation occurs by Van der Waals' and electrostatic interactions. On this stage the low-energy conformation becomes "frozen" and cannot be significantly rearranged later. The mutual orientation of secondary protein structures are determined mainly by amino acid radical volumes, their hydrophobicity and charge.

UI MeSH Term Description Entries
D008433 Mathematics The deductive study of shape, quantity, and dependence. (From McGraw-Hill Dictionary of Scientific and Technical Terms, 6th ed) Mathematic
D008722 Methods A series of steps taken in order to conduct research. Techniques,Methodological Studies,Methodological Study,Procedures,Studies, Methodological,Study, Methodological,Method,Procedure,Technique
D008958 Models, Molecular Models used experimentally or theoretically to study molecular shape, electronic properties, or interactions; includes analogous molecules, computer-generated graphics, and mechanical structures. Molecular Models,Model, Molecular,Molecular Model
D009211 Myoglobin A conjugated protein which is the oxygen-transporting pigment of muscle. It is made up of one globin polypeptide chain and one heme group.
D011487 Protein Conformation The characteristic 3-dimensional shape of a protein, including the secondary, supersecondary (motifs), tertiary (domains) and quaternary structure of the peptide chain. PROTEIN STRUCTURE, QUATERNARY describes the conformation assumed by multimeric proteins (aggregates of more than one polypeptide chain). Conformation, Protein,Conformations, Protein,Protein Conformations
D004902 Erythrocruorins High molecular weight (1,500,000 to 3,000,000) hemoglobins found in the plasma of many polychete and oligochete annelid worms, crustaceans, insects, and mollusks. They bind one mole of oxygen per heme and function as oxygen carriers.
D005916 Globulins A group of proteins that are salt-soluble and form a large fraction of BLOOD PROTEINS. There are three types of globulins, ALPHA-GLOBULINS, BETA-GLOBULINS, and GAMMA-GLOBULINS, which are distinguished from one another by their degree of electrophoretic mobility. Globulin
D006454 Hemoglobins The oxygen-carrying proteins of ERYTHROCYTES. They are found in all vertebrates and some invertebrates. The number of globin subunits in the hemoglobin quaternary structure differs between species. Structures range from monomeric to a variety of multimeric arrangements. Eryhem,Ferrous Hemoglobin,Hemoglobin,Hemoglobin, Ferrous
D000818 Animals Unicellular or multicellular, heterotrophic organisms, that have sensation and the power of voluntary movement. Under the older five kingdom paradigm, Animalia was one of the kingdoms. Under the modern three domain model, Animalia represents one of the many groups in the domain EUKARYOTA. Animal,Metazoa,Animalia
D014907 Whales Large marine mammals of the order CETACEA. In the past, they were commercially valued for whale oil, for their flesh as human food and in ANIMAL FEED and FERTILIZERS, and for baleen. Today, there is a moratorium on most commercial whaling, as all species are either listed as endangered or threatened. Beaked Whales,Berardius,Caperea,Dwarf Sperm Whale,Giant Bottle-Nosed Whales,Goose-Beaked Whale,Gray Whale,Mesoplodon,Narwhals,Pygmy Right Whale,Pygmy Sperm Whale,Right Whale, North Atlantic,Right Whale, Southern,Ziphiidae,Ziphius,Eschrichtius robustus,Eubalaena australis,Grey Whale,Monodon monoceros,North Atlantic Right Whale,Beaked Whale,Bottle-Nosed Whale, Giant,Bottle-Nosed Whales, Giant,Dwarf Sperm Whales,Giant Bottle Nosed Whales,Giant Bottle-Nosed Whale,Goose Beaked Whale,Goose-Beaked Whales,Gray Whales,Grey Whales,Narwhal,Pygmy Right Whales,Pygmy Sperm Whales,Right Whale, Pygmy,Right Whales, Pygmy,Right Whales, Southern,Southern Right Whale,Southern Right Whales,Sperm Whale, Dwarf,Sperm Whale, Pygmy,Sperm Whales, Dwarf,Sperm Whales, Pygmy,Whale,Whale, Grey,Whale, Southern Right,Whales, Grey,Whales, Southern Right

Related Publications

V V Solov'ev, and H A Kolchanov
January 1999, Molekuliarnaia biologiia,
V V Solov'ev, and H A Kolchanov
December 1994, Journal of biomolecular structure & dynamics,
V V Solov'ev, and H A Kolchanov
October 1974, Journal of molecular biology,
V V Solov'ev, and H A Kolchanov
June 2005, Physical chemistry chemical physics : PCCP,
V V Solov'ev, and H A Kolchanov
August 2005, Physical review. E, Statistical, nonlinear, and soft matter physics,
V V Solov'ev, and H A Kolchanov
August 1983, Nucleic acids research,
V V Solov'ev, and H A Kolchanov
August 2007, Protein science : a publication of the Protein Society,
V V Solov'ev, and H A Kolchanov
June 2010, Protein science : a publication of the Protein Society,
V V Solov'ev, and H A Kolchanov
November 1972, The Biochemical journal,
Copied contents to your clipboard!