DEVELOPMENT OF THE APPROACH TO QUANTITATIVE ASSESSMENT OF HIRAL ASYMMETRY IN HIERARCHIES OF PROTEIN STRUCTURE
Abstract and keywords
Abstract (English):
The prerequisites for the presented research were the works in which the system regularity of the chirality sign change in the transition to a higher level of structural and functional organization in proteins and nucleic acids (V.A. Tverdislov et al., 2012, 2017) was revealed. A new approach to the evaluation of the sign of chirality (helicity and supercoiling) in the structural hierarchy of proteins is proposed. An analysis of the mutual arrangement of α-carbon atoms was carried out to determine the sign and magnitude of the chirality of the secondary and tertiary structure of proteins . The angle between the vector of the direction of the helix and the vector of the sum of vector products makes it possible to uniquely identify the direction of rotation of the helix in the molecule. A method for constructing "chirality maps" which clearly demonstrates the areas corresponding to a narrow range of the possible angle for the two types of secondary spiral structure is proposed.

Keywords:
proteins, chirality, enantiomers, alpha-carbon atom, right-handed alpha helix, left-handed polyproline helix, cross product, direction vector, chirality map
Text
Publication text (PDF): Read Download
References

1. Tverdislov V.A., Sidorova A.E., Yakovenko L.V. Ot simmetriy - k zakonam evolyucii. I. Hiral'nost' kak instrument stratifikacii aktivnyh sred. Biofizika. M.: Izd-vo Nauka, 2012, t. 57, vyp. 1, c. 146-154. [Tverdislov V.A., Sidorova A.E., Iakovenko L.V. From symmetries to the laws of evolution. I. Chirality as a means of active media stratification. Biophysics, 2012, vol. 57, no. 1, pp. 146-154 (In Russ.)]

2. Tverdislov V.A. Hiral'nost' kak pervichnyy pereklyuchatel' ierarhicheskih urovney v molekulyarno-biologicheskih sistemah. Biofizika. M.: izd-vo Nauka, 2013, t. 58, № 1, s. 159-164. [Tverdislov V.A. Chirality as a primary switch of hierarchical levels in molecular biological systems. Biophysics. 2013, vol. 58. no. 1, pp. 128-132 (In Russ.)]

3. Tverdislov V.A., Malyshko E.V., Il'chenko S.A. Ot volnovyh mehanizmov samoorganizacii k molekulyarnym mashinam. Izvestiya RAN. Seriya fizicheskaya, 2015, t. 79, № 3, s. 1729-1733 [Tverdislov VA, Malyshko EV, Ilchenko S.A. From the wave mechanisms of self-organization to molecular machines. Proceedings of the Russian Academy of Sciences. Physical series, 2015, vol. 79, no. 12, pp. 1728-1732 (In Russ.)]

4. Petitjean M. On the root mean square quantitative chirality and quantitative symmetry measures. Journal of Mathematical Physics, 1999, vol. 40, no. 9, pp. 4587-4595.

5. Avnir D., Hel-Or H., Mezey P. Symmetry and chirality: Continuous measures. The Encyclopedia of Computational Chemistry, 1998, vol. 4, pp. 2890-2901.

6. Luzanov A.V., Ivanov V.V., Minyaev. R.M. Indeksy disimmetrii na osnove opticheskoy vraschatel'noy polyarizuemosti hiral'nyh molekul. Zhurnal strukturnoy himii. Novosibirsk: Izd-vo SO RAN, 1998, t. 39, № 2, s. 319-327. [Luzanov A.V., Ivanov V.V., Minyaev R.M. Disymmetry indices based on the optical rotational polarizability of chiral molecules. Journal of Structural Chemistry. Novosibirsk: Publishing House SB RAS, 1998, vol. 39, no. 2, pp. 319-327 (In Russ.)]

7. Marcenyuk M.A., Marcenyuk N.M., Fufachev M.A. Tenzornye parametry kak «mery» kiral'nosti molekul. Vestnik Permskogo universiteta. Seriya: Himiya, 2011, vyp. 4, № 4. s. 61-70. [Martsenyuk M.A., Martsenyuk N.M., Fufachev M.A. Tensor parameters as "measures" of the chirality of molecules. Perm University Herald. Chemistry, 2011, vol. 4, no. 4, pp. 61-70 (In Russ.)]

8. Ovchinnikov Yu.A. Bioorganicheskaya himiya. M.: Prosveschenie, 1987, 815 s. [Ovchinnikov Yu.A. Bioorganic chemistry. Moscow: Prosveshcheniye, 1987, 815 p. (In Russ.)]

9. Finkel'shteyn A.V. Fizika belkovyh molekul. M.-Izhevsk: Institut komp'yuternyh issledovaniy, 2014, 424 s. [Finkelstein A.V. Physics of protein molecules. Moscow-Izhevsk: Institute of Computer Science, 2014, 424 p. (In Russ.)]

10. Alenicyn A.G., Butikov E.I., Kondrat'ev A.S. Kratkiy fiziko-matematicheskiy spravochnik. M.: Nauka, 1990, 368 s. [Alenitsyn A.G., Butikov E.I., Kondratiev A.S. Brief physics and mathematics reference book. Moscow: Nauka, 1990, 368 p. (In Russ.)]


Login or Create
* Forgot password?