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Pregled bibliografske jedinice broj: 954558

Assessment of scoring functions for ache-ligand interactions


Šinko, Goran
Assessment of scoring functions for ache-ligand interactions // Programme and Abstract Book, Military Medical Science Letters - Special Issue on the occasion of the 13th International Meeting on Cholinesterases and the 7th International Conference on Paraoxonases / Korabečny, Jan ; Soukup, Ondrej (ur.).
Hradec Kralove, Republika Češka, 2018. str. 36-36 (predavanje, međunarodna recenzija, sažetak, znanstveni)


Naslov
Assessment of scoring functions for ache-ligand interactions

Autori
Šinko, Goran

Vrsta, podvrsta i kategorija rada
Sažeci sa skupova, sažetak, znanstveni

Izvornik
Programme and Abstract Book, Military Medical Science Letters - Special Issue on the occasion of the 13th International Meeting on Cholinesterases and the 7th International Conference on Paraoxonases / Korabečny, Jan ; Soukup, Ondrej - Hradec Kralove, Republika Češka, 2018, 36-36

Skup
13th International Meeting on Cholinesterases and the 7th International Conference on Paraoxonases

Mjesto i datum
Hradec Kralove, Republika Češka, 9-14.9.2018

Vrsta sudjelovanja
Predavanje

Vrsta recenzije
Međunarodna recenzija

Ključne riječi
AChE ; drug discovery ; scoring function ; inhibition constant

Sažetak
Computer-aided drug design is based on molecular modelling which includes two steps ; molecular docking accompanied by scoring docked poses. Molecular docking fits the right molecular “key” to a known receptor “lock” by optimizing the atomic coordinates of a ligand to adapt its 3D structure in such a way to accommodate the binding into the receptor. The second step is the determination of a good fit between the ligand “key” and receptor “lock” using a function that correctly prioritizes the docked ligand poses and predicts their binding affinities by taking into account molecular interactions between the ligand, protein and solvent. The 68 crystal structures of complexes between acetylcholinesterase (AChE, EC 3.1.1.7) and its ligands, deposited in PDB, were analysed by scoring the functions: LigScore1, LigScore2, PLP1, PLP2, Jain, PMF and PMF04. The scores derived from scoring functions were correlated with an inhibition constant for each ligand (Ki or IC50) in a broad range 10^-3 – 10^-12 M. Scores were also correlated with other computational properties as the number of rotational bonds, number of H-bond donor or acceptor atoms, molecular complexity index and topological polar surface area. The linear correlation between the scores derived from the scoring function and matching pKi data resulted in the highest r value for the PLP2 function, r = 0.77, with 10% of the slope error. The LigScore1function resulted in the lowest r value of 0.47 with 23% of the slope error. The PLP2 scoring function is a good candidate in drug discovery related to AChE, although with a higher number of crystal structures of AChE complexes and reliable kinetic data, a better scoring function could be developed.

Izvorni jezik
Engleski

Znanstvena područja
Kemija, Javno zdravstvo i zdravstvena zaštita, Farmacija



POVEZANOST RADA


Projekt / tema
HRZZ-IP-2013-11-4307 - Dizajn, sinteza i evaluacija novih protuotrova kod trovanja živčanim bojnim otrovima i pesticidima (Zrinka Kovarik, )

Ustanove
Institut za medicinska istraživanja i medicinu rada, Zagreb

Autor s matičnim brojem:
Goran Šinko, (228005)