The paper describes a new method of Information Structure Analysis (ISAN) for protein sequences. The method uses a new approximation for description of protein sequences, which allows us to detect hierarchically organized elements (Information Structure Elements (ISEL)) in them. It is shown that...

The paper describes a new method for the analysis of protein sequences - the method of analysis of the information structure (ANIS method). The method uses a new approach to describe amino acid sequences and identify hierarchically organized elements in the information structure of protein...

In this research the entropy characteristics of natural polypeptide sequences are studied. Based on these results suggested a new paradigm of the structural organization of proteins. Elementary unit in sequence of protein according to this new paradigm is the group of five neighboring residues....

Globular proteins themselves form compact molecular structures, the packing density of the atoms in which is close to the density of packing of atoms in crystals. We suppose that for the existence of such properties in natural polypeptide chains, there must exist both the areas in which local...

Informational structure of cytochrome c was investigated using the ANIS method (Analysis of Informational Structure Method). Mutant variants of cytochrome c gene were constructed on the basis of data from the ANIS method. The mutations carry substitutions reducing electrontransport activity of...

Specific protein-protein interaction is essential for the function of life systems. A variety of computational methods are being extensively used now-a-days to investigate this interaction and to identify structural features of binding sites. In this paper, the informational structure analysis...

Kamchatka crab duplex-specific nuclease (Par_DSN) has been classified as a member of the family of DNA/ RNA non-specific beta-beta-alpha metal finger (bba-Me-finger) nucleases, the archetype of which is the nuclease from Serratia marcescens. Although the enzyme under investigation seems to...

The tumor necrosis factor (TNF) is a proinflammatory cytokine that plays a pivotal role in the regulation of the human immune system. Studies of the TNF functional topography are a challenging task in bioengineering. We have produced genes encoding the peptides Dl (3-30), D2 (31-85), D3 (86-114),...

Дано описание метода анализа информационной структуры белков (ANIS) позволяющего выявлять иерархическую структуру при анализе белковых последовательностей....

В работе проведены исследования, направленные на выяснение механизма, обеспечивающего выведение атома Fe из плоскости гема цитохрома с. Для этого при помощи...

Interleukin
13 (IL
13) is one of the cytokines involved in the development of Th2
type immune response. It plays an important role in the pathogenesis of asthma and other allergic diseases. Two deletion forms of IL
13 were constructed on a basis of informational structure analysis and expressed...

Gp181 (2237 amino acids) of Pseudomonas aeruginosa bacteriophage uKZ (Myoviridae) is a structural virion protein, which bears a peptidoglycan hydrolase domain near its C-terminus. This protein is supposed to degrade the peptidoglycan locally during the infection process. Nine deletional mutants...

The novel method allowing identification of protein structure elements responsible for catalytic activity manifestation is proposed. Structural organization of various hydrolases was studied using the ANIS (ANalysis of Informational Structure) method. ANIS allows to reveal a hierarchy of the...

The object of the present study is the verification of a new approach to the design of the active truncated forms of enzymes. The method is based on a new way of investigating the protein sequences--the ANalysis of Informational Structure (ANIS). The analysis of informational structure allows to...

A comparison of the location of B-cell epitopes and information structure (IS) of protein sequences was attempted. Analysis of 62 known B-cell epitopes located in five different proteins showed that they concentrated in IS sites with increased degree of information coordination. Based on the...

Sub-unit vaccines are synthetic or recombinant peptides representing T- or B-cell epitopes of major protein antigens from a particular pathogen. Epitope selection requires the synthesis of peptides that overlap the protein sequences and screening for the most effective ones. In this study a new...

The amino acid sequences of gamma-crystallin, Haloalkane Dehalogenase, Phthalate Dioxygenase, Porphobilinogen Deaminase and Myosin Regulatory Domain c-chain were analyzed for their information content. Sites of increased degree of information coordination between residues (IDIC-sites) were...

Several classifications of protein spatial structures and their structural elements are known. This makes revealing of the relation between these structural elements and sequence fragments rather topical. The most important move in this direction would be the determination of positional...

A measure of similarity between amino acid residues based on the analysis of the surroundings of each residue in primary structures of native proteins is proposed. The statistical data used for this purpose were obtained from the analysis of 168,808 protein sequences, which comprise the Protein...

The spatial structure of cyclo(-Gly-DSIP-), a physiologically active analog of the delta sleep-inducing peptide, was determined by computer modelling using 1H NMR data. An interesting feature of the spatial structure in DMSO was detected. One side of almost planar resulting conformation is formed...

Earlier obtained two-dimensional ~H-NMR spectroscopy data were used to analyze the spatial structure and conformational mobility of the double right TI 1rlr7~ helix of the complex formed by gramicidine A and Cs ÷ ions in an organic solvent (a chloroform-methanol mixture). Analysis of the...