Investigation of the structure and dynamics of the capsid-spacer peptide 1-nucleocapsid fragment of the HIV-1 gag polyprotein by solution NMR spectroscopy

Angewandte Chemie
Lalit DeshmukhG Marius Clore

Abstract

Structural studies of HIV-1 Gag, the primary structural polyprotein involved in retroviral assembly, have been challenging, owing to its flexibility and conformational heterogeneity. Using residual dipolar couplings, we show that the four structural units of the capsid (CA)-spacer peptide 1 (SP1)-nucleocapsid (NC) fragment of HIV-1 Gag (namely, the N- and C-terminal domains of capsid, and the N- and C-terminal Zn knuckles of nucleocapsid) have the same structures as their individually isolated counterparts, and tumble semi-independently of one another in the absence of nucleic acids. Nucleic acids bind exclusively to the nucleocapsid domain and fix the orientation of the two Zn knuckles relative to one another so that the nucleocapsid domain/nucleic acid complex behaves as a single structural unit. The low (15) N-{(1) H} heteronuclear NOE values (≤0.4), the close to zero values for the residual dipolar couplings of the backbone amides, and minimal deviations from random-coil chemical shifts for the C-terminal tail of capsid and SP1, both in the absence and presence of nucleic acids, indicate that these regions are intrinsically disordered in the context of CA-SP1-NC.

References

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Sep 27, 2013·Journal of the American Chemical Society·Lalit DeshmukhG Marius Clore

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Citations

Dec 29, 2015·The Journal of Physical Chemistry. B·Rupal GuptaTatyana E Polenova
Feb 26, 2015·Proceedings of the National Academy of Sciences of the United States of America·Lalit DeshmukhG Marius Clore
May 30, 2015·PloS One·Martin WolffLuitgard Nagel-Steger
Nov 3, 2016·Proceedings of the National Academy of Sciences of the United States of America·Lalit DeshmukhG Marius Clore
Mar 8, 2016·Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry·Lalit DeshmukhG Marius Clore
Nov 1, 2017·Proceedings of the National Academy of Sciences of the United States of America·Lalit DeshmukhG Marius Clore
Oct 3, 2014·Journal of Virology·Karolína Strohalmová-BohmováMichaela Rumlová
Nov 20, 2016·Chemical Communications : Chem Comm·Sarah R SpellNicholas P Farrell
Feb 25, 2017·Intrinsically Disordered Proteins·Shelly DeForteVladimir N Uversky
Dec 19, 2020·International Journal of Molecular Sciences·Tatiana V IlinaRieko Ishima
Feb 8, 2019·Journal of Molecular Biology·Dominic F QualleyKarin Musier-Forsyth

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