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Pregled bibliografske jedinice broj: 916570

Conformational analysis of spiro-epoxides by principal component analysis of molecular dynamics trajectories


Hrenar, Tomica; Primožič, Ines; Fijan, Domagoj; Majerić Elenkov, Maja
Conformational analysis of spiro-epoxides by principal component analysis of molecular dynamics trajectories // PCCP. Physical chemistry chemical physics, 19 (2017), 31706-31713 doi:10.1039/C7CP05600A (međunarodna recenzija, članak, znanstveni)


Naslov
Conformational analysis of spiro-epoxides by principal component analysis of molecular dynamics trajectories

Autori
Hrenar, Tomica ; Primožič, Ines ; Fijan, Domagoj ; Majerić Elenkov, Maja

Izvornik
PCCP. Physical chemistry chemical physics (1463-9076) 19 (2017); 31706-31713

Vrsta, podvrsta i kategorija rada
Radovi u časopisima, članak, znanstveni

Ključne riječi
Conformational analysis ; spiro-epoxides ; principal component analysis ; molecular dynamics trajectories

Sažetak
A new procedure for full conformational analyses comprising the statistical analysis of molecular dynamics trajectories was developed and applied. This method included a coordinate space for sampling using molecular dynamics simulations, reduction of dimensionality using tensor decomposition tools, determination of probability distributions in a reduced space, and finally the search for all of the strict extrema points of probability distributions. These extracted extrema points formed an initial guess for geometry optimization and clustering of conformers. A complete conformational space of 1-oxaspiro[2, 5]octane and its cis- and trans-4-, 5- and 6-methyl substituted derivatives was also determined. In each case, eight conformers were found with two chair-like conformers predominant at room temperature. It was found that chair-like conformers with an epoxide ring oxygen atom in the pseudo-axial position had less strain, as well as all of their conformers with the methyl substituent in an equatorial position on a cyclohexane moiety.

Izvorni jezik
Engleski

Znanstvena područja
Kemija



POVEZANOST RADA


Projekt / tema
HRZZ-IP-2016-06-3775 - Aktivnošću i in silico usmjeren dizajn malih bioaktivnih molekula (Tomica Hrenar, )

Ustanove
Institut "Ruđer Bošković", Zagreb,
Prirodoslovno-matematički fakultet, Zagreb

Časopis indeksira:


  • Current Contents Connect (CCC)
  • Web of Science Core Collection (WoSCC)
    • Science Citation Index Expanded (SCI-EXP)
    • SCI-EXP, SSCI i/ili A&HCI
  • Scopus
  • MEDLINE


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