Complementation of 3D structure of delta subunit of RNA polymerase from Bacillus subtilis with description of internal motions in terms of reduced spectral density mapping

KADEŘÁVEK, Pavel, Carl DIEHL, Veronika PAPOUŠKOVÁ, Hana ŠANDEROVÁ, Petr PADRTA, Lukáš ŽÍDEK, Libor KRÁSNÝ, Vladimír SKLENÁŘ and Mikael AKKE. Complementation of 3D structure of delta subunit of RNA polymerase from Bacillus subtilis with description of internal motions in terms of reduced spectral density mapping. MATERIALS STRUCTURE. 2011, vol. 18, No 1, p. 3-5. ISSN 1211-5894.

Basic information

Original name

Complementation of 3D structure of delta subunit of RNA polymerase from Bacillus subtilis with description of internal motions in terms of reduced spectral density mapping

Authors

KADEŘÁVEK, Pavel (203 Czech Republic, guarantor, belonging to the institution), Carl DIEHL (752 Sweden), Veronika PAPOUŠKOVÁ (203 Czech Republic, belonging to the institution), Hana ŠANDEROVÁ (203 Czech Republic), Petr PADRTA (203 Czech Republic, belonging to the institution), Lukáš ŽÍDEK (203 Czech Republic, belonging to the institution), Libor KRÁSNÝ (203 Czech Republic), Vladimír SKLENÁŘ (203 Czech Republic, belonging to the institution) and Mikael AKKE (752 Sweden)

Edition

MATERIALS STRUCTURE, 2011, 1211-5894

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Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

10600 1.6 Biological sciences

Country of publisher

Czech Republic

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

URL

RIV identification code

RIV/00216224:14740/11:00057189

Organization unit

Central European Institute of Technology

Keywords in English

NMR; delta subunit; RNA polymerase; spectral density function

Tags

ok, rivok

Tags

Reviewed

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Abstract

V originále

RNA polymerases of Gram positive and Gram negative bacteria differ. The subunit composition in Gram positive bacteria includes two additional subunits. One of them is denoted delta-subunit. The structure of delta-subunit from Bacillus subtilis has been solved recently using methods of solution NMR [1] (PDB ID = 2KRC). Here, we extend the information about the structure by the basic characterization of its dynamics studied at two temperatures. The standard relaxation experiments (R1, R2, ssNOE) were performed and data were analyzed using reduced spectral density mapping as the most straightforward approach. The analysis reveals flexible residues in the central part of the sequence. It confirms expected independent stochastic movements in the C-terminal part of the molecule. Results also yield an evidence of a slow conformational exchange of several residues in the well-structured region of the protein.

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Links

FRVS/1851/2010, interní kód MU	Name: Využití nukleární magnetické rezonance pro studium vnitřních pohybů biomolekul (Acronym: frvs) Investor: Ministry of Education, Youth and Sports of the CR, G - Students' Creative Activity
GA204/09/0583, research and development project	Name: Delta podjednotka RNA polymerázy z Gram pozitivních bakterií (Acronym: DELTA) Investor: Czech Science Foundation
GD301/09/H004, research and development project	Name: Molekulární a strukturní biologie vybraných cytostatik. Od mechanistických studií k chemoterapii rakoviny Investor: Czech Science Foundation
LC06030, research and development project	Name: Biomolekulární centrum Investor: Ministry of Education, Youth and Sports of the CR, Biomolecular centre
MSM0021622413, plan (intention)	Name: Proteiny v metabolismu a při interakci organismů s prostředím Investor: Ministry of Education, Youth and Sports of the CR, Proteins in metabolism and interaction of organisms with the environment