Endre søk
RefereraExporteraLink to record
Permanent link

Direct link
Referera
Referensformat
  • apa
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Annet format
Fler format
Språk
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Annet språk
Fler språk
Utmatningsformat
  • html
  • text
  • asciidoc
  • rtf
Microtubule assembly and disassembly dynamics model: Exploring dynamic instability and identifying features of Microtubules' Growth, Catastrophe, Shortening, and Rescue
Univ Massachusetts, Dept Chem, Lowell, MA 01854 USA..
Univ Massachusetts, Dept Chem, Lowell, MA 01854 USA.;Univ Toronto, Dept Phys, Toronto, ON M5S 1A7, Canada..
Univ Cincinnati, Dept Chem, Cincinnati, OH 45221 USA..
KTH, Skolan för elektroteknik och datavetenskap (EECS), Centra, Parallelldatorcentrum, PDC.
Vise andre og tillknytning
2022 (engelsk)Inngår i: Computational and Structural Biotechnology Journal, E-ISSN 2001-0370, Vol. 20, s. 953-974Artikkel i tidsskrift (Fagfellevurdert) Published
Abstract [en]

Microtubules (MTs), a cellular structure element, exhibit dynamic instability and can switch stochastically from growth to shortening; but the factors that trigger these processes at the molecular level are not understood. We developed a 3D Microtubule Assembly and Disassembly DYnamics (MADDY) model, based upon a bead-per-monomer representation of the alpha beta-tubulin dimers forming an MT lattice, stabilized by the lateral and longitudinal interactions between tubulin subunits. The model was parameterized against the experimental rates of MT growth and shortening, and pushing forces on the Dam1 protein complex due to protofilaments splaying out. Using the MADDY model, we carried out GPU-accelerated Langevin simulations to access dynamic instability behavior. By applying Machine Learning techniques, we identified the MT characteristics that distinguish simultaneously all four kinetic states: growth, catastrophe, shortening, and rescue. At the cellular 25 mu M tubulin concentration, the most important quantities are the MT length L, average longitudinal curvature kappa(long), MT tip width w, total energy of longitudinal interactions in MT lattice U-long, and the energies of longitudinal and lateral interactions required to complete MT to full cylinder U-long(add) and U-lat(add) . At high 250 mu M tubulin concentration, the most important characteristics are L, kappa(long), number of hydrolyzed alpha beta-tubulin dimers n(hyd) and number of lateral interactions per helical pitch n(lat) in MT lattice, energy of lateral interactions in MT lattice U-lat, and energy of longitudinal interactions in MT tip u(long). These results allow greater insights into what brings about kinetic state stability and the transitions between states involved in MT dynamic instability behavior.

sted, utgiver, år, opplag, sider
Elsevier BV , 2022. Vol. 20, s. 953-974
HSV kategori
Identifikatorer
URN: urn:nbn:se:kth:diva-311675DOI: 10.1016/j.csbj.2022.01.028ISI: 000778344800005PubMedID: 35242287Scopus ID: 2-s2.0-85124685234OAI: oai:DiVA.org:kth-311675DiVA, id: diva2:1655432
Merknad

QC 20220502

Tilgjengelig fra: 2022-05-02 Laget: 2022-05-02 Sist oppdatert: 2022-06-25bibliografisk kontrollert

Open Access i DiVA

Fulltekst mangler i DiVA

Andre lenker

Forlagets fulltekstPubMedScopus

Person

Zhmurov, Artem

Søk i DiVA

Av forfatter/redaktør
Zhmurov, Artem
Av organisasjonen
I samme tidsskrift
Computational and Structural Biotechnology Journal

Søk utenfor DiVA

GoogleGoogle Scholar

doi
pubmed
urn-nbn

Altmetric

doi
pubmed
urn-nbn
Totalt: 89 treff
RefereraExporteraLink to record
Permanent link

Direct link
Referera
Referensformat
  • apa
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Annet format
Fler format
Språk
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Annet språk
Fler språk
Utmatningsformat
  • html
  • text
  • asciidoc
  • rtf