The Structure of Bacteriophage phi Cb5 Reveals a Role of the
RNA Genome and Metal Ions in Particle Stability and Assembly

J 2009

The Structure of Bacteriophage phi Cb5 Reveals a Role of the RNA Genome and Metal Ions in Particle Stability and Assembly

PLEVKA, Pavel; Andris KAZAKS; Tatyana VORONKOVA; Svetlana KOTELOVICA; Andris DISHLERS et al.

Základní údaje

Originální název

The Structure of Bacteriophage phi Cb5 Reveals a Role of the RNA Genome and Metal Ions in Particle Stability and Assembly

Autoři

PLEVKA, Pavel; Andris KAZAKS; Tatyana VORONKOVA; Svetlana KOTELOVICA; Andris DISHLERS; Lars LILJAS a Kaspars TARS

Vydání

Journal of Molecular Biology, LONDON, ACADEMIC PRESS LTD- ELSEVIER SCIENCE LTD, 2009, 0022-2836

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10600 1.6 Biological sciences

Stát vydavatele

Velká Británie a Severní Irsko

Utajení

není předmětem státního či obchodního tajemství

Impakt faktor

Impact factor: 3.871

Označené pro přenos do RIV

Organizační jednotka

Středoevropský technologický institut

DOI

https://doi.org/10.1016/j.jmb.2009.06.047

UT WoS

000269097000011

Klíčová slova anglicky

virus; structure; assembly; calcium; RNA

Štítky

neMU

Změněno: 30. 3. 2017 11:15, Mgr. Eva Špillingová

Anotace

V originále

The structure of the Leviviridae bacteriophage phi Cb5 virus-like particle has been determined at 2.9 angstrom resolution and the structure of the native bacteriophage phi Cb5 at 3.6 angstrom. The structures of the coat protein shell appear to be identical, while differences are found in the organization of the density corresponding to the RNA. The capsid is built of coat protein dimers and in shape corresponds to a truncated icosahedron with T=3 quasi-symmetry. The capsid is stabilized by four calcium ions per icosahedral asymmetric unit. One is located at the symmetry axis relating the quasi-3-fold related subunits and is part of an elaborate network of hydrogen bonds stabilizing the interface. The remaining calcium ions stabilize the contacts within the coat protein dimer. The stability of the phi Cb5 particles decreases when calcium ions are chelated with EDTA. In contrast to other leviviruses, phi Cb5 particles are destabilized in solution with elevated salt concentration. The model of the phi Cb5 capsid provides an explanation of the salt-induced destabilization of phi Cb5, since hydrogen bonds, salt bridges and calcium ions have important roles in the intersubunit interactions. Electron density of three putative RNA nucleotides per icosahedral asymmetric unit has been observed in the phi Cb5 structure. The nucleotides mediate contacts between the two subunits forming a dimer and a third subunit in another dimer. We suggest a model for phi Cb5 capsid assembly in which addition of coat protein dimers to the forming capsid is facilitated by interaction with the RNA genome. The phi Cb5 structure is the first example in the levivirus family that provides insight into the mechanism by which the genome-coat protein interaction may accelerate the capsid assembly and increase capsid stability. (C) 2009 Elsevier Ltd. All rights reserved.

Citovat

PLEVKA, Pavel; Andris KAZAKS; Tatyana VORONKOVA; Svetlana KOTELOVICA; Andris DISHLERS; Lars LILJAS a Kaspars TARS. The Structure of Bacteriophage phi Cb5 Reveals a Role of the RNA Genome and Metal Ions in Particle Stability and Assembly. Journal of Molecular Biology. LONDON: ACADEMIC PRESS LTD- ELSEVIER SCIENCE LTD, 2009, roč. 391, č. 3, s. 635-647. ISSN 0022-2836. Dostupné z: https://doi.org/10.1016/j.jmb.2009.06.047.

@article{1376894,
   author = {Plevka, Pavel and Kazaks, Andris and Voronkova, Tatyana and Kotelovica, Svetlana and Dishlers, Andris and Liljas, Lars and Tars, Kaspars},
   article_location = {LONDON},
   article_number = {3},
   doi = {https://doi.org/10.1016/j.jmb.2009.06.047},
   keywords = {virus; structure; assembly; calcium; RNA},
   language = {eng},
   issn = {0022-2836},
   journal = {Journal of Molecular Biology},
   title = {The Structure of Bacteriophage phi Cb5 Reveals a Role of the RNA Genome and Metal Ions in Particle Stability and Assembly},
   volume = {391},
   year = {2009}
}

TY  - JOUR
ID  - 1376894
AU  - Plevka, Pavel - Kazaks, Andris - Voronkova, Tatyana - Kotelovica, Svetlana - Dishlers, Andris - Liljas, Lars - Tars, Kaspars
PY  - 2009
TI  - The Structure of Bacteriophage phi Cb5 Reveals a Role of the RNA Genome and Metal Ions in Particle Stability and Assembly
JF  - Journal of Molecular Biology
VL  - 391
IS  - 3
SP  - 635-647
EP  - 635-647
PB  - ACADEMIC PRESS LTD- ELSEVIER SCIENCE LTD
SN  - 00222836
KW  - virus
KW  - structure
KW  - assembly
KW  - calcium
KW  - RNA
N2  - The structure of the Leviviridae bacteriophage phi Cb5 virus-like particle has been determined at 2.9 angstrom resolution and the structure of the native bacteriophage phi Cb5 at 3.6 angstrom. The structures of the coat protein shell appear to be identical, while differences are found in the organization of the density corresponding to the RNA. The capsid is built of coat protein dimers and in shape corresponds to a truncated icosahedron with T=3 quasi-symmetry. The capsid is stabilized by four calcium ions per icosahedral asymmetric unit. One is located at the symmetry axis relating the quasi-3-fold related subunits and is part of an elaborate network of hydrogen bonds stabilizing the interface. The remaining calcium ions stabilize the contacts within the coat protein dimer. The stability of the phi Cb5 particles decreases when calcium ions are chelated with EDTA. In contrast to other leviviruses, phi Cb5 particles are destabilized in solution with elevated salt concentration. The model of the phi Cb5 capsid provides an explanation of the salt-induced destabilization of phi Cb5, since hydrogen bonds, salt bridges and calcium ions have important roles in the intersubunit interactions. Electron density of three putative RNA nucleotides per icosahedral asymmetric unit has been observed in the phi Cb5 structure. The nucleotides mediate contacts between the two subunits forming a dimer and a third subunit in another dimer. We suggest a model for phi Cb5 capsid assembly in which addition of coat protein dimers to the forming capsid is facilitated by interaction with the RNA genome. The phi Cb5 structure is the first example in the levivirus family that provides insight into the mechanism by which the genome-coat protein interaction may accelerate the capsid assembly and increase capsid stability. (C) 2009 Elsevier Ltd. All rights reserved.
ER  -

PLEVKA, Pavel; Andris KAZAKS; Tatyana VORONKOVA; Svetlana KOTELOVICA; Andris DISHLERS; Lars LILJAS a Kaspars TARS. The Structure of Bacteriophage phi Cb5 Reveals a Role of the RNA Genome and Metal Ions in Particle Stability and Assembly. \textit{Journal of Molecular Biology}. LONDON: ACADEMIC PRESS LTD- ELSEVIER SCIENCE LTD, 2009, roč.~391, č.~3, s.~635-647. ISSN~0022-2836. Dostupné z: https://doi.org/10.1016/j.jmb.2009.06.047.

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