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Importance of the three basic residues in the vicinity of the zinc-binding motives for the activity of the yeast dipeptidyl peptidase III


Jajčanin Jozić, Nina; Tomić, Sanja; Abramić, Marija
Importance of the three basic residues in the vicinity of the zinc-binding motives for the activity of the yeast dipeptidyl peptidase III // Journal of biochemistry, 155 (2014), 1; 43-50 doi:10.1093/jb/mvt093 (međunarodna recenzija, članak, znanstveni)


Naslov
Importance of the three basic residues in the vicinity of the zinc-binding motives for the activity of the yeast dipeptidyl peptidase III

Autori
Jajčanin Jozić, Nina ; Tomić, Sanja ; Abramić, Marija

Izvornik
Journal of biochemistry (0021-924X) 155 (2014), 1; 43-50

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

Ključne riječi
Dipeptidyl peptidase III; metallopeptidase; molecular dynamics; Saccharomyces cerevisiae; site-directed mutagenesis

Sažetak
Yeast dipeptidyl peptidase III (yDPP III) is a member of the metallopeptidase family M49 involved in intracellular protein catabolism. Elucidation of the yDPP III crystal structure has pinpointed the zinc-coordinating residues (two His from H460ELLGH465 motif and the second Glu from E516ECRAE521 motif), and several amino acid residues potentially important for catalytic activity whose roles have not been investigated. Here, three putative catalytic residues of the yDPP III, His578, Arg582 and Lys638 were substituted and the resultant single mutants characterized. The replacement of His578 with an asparagine significantly (122-fold) lowered the catalytic efficiency, kcat/Km, for Arg-Arg-2- naphthylamide (Arg2-2NA) hydrolysis, and affinity for hydroxamate inhibitor Tyr-Phe-NHOH (decline by 14-fold). The R582Q mutant exhibited an order of magnitude higher activity with all four dipeptide derivatives examined, compared to the wild-type. The molecular dynamics simulations revealed the change in the H-bond networking in the R582Q variant active-site region. The mutation of Lys638, to Leu, slightly increased the specificity constant for Arg2-2NA hydrolysis. However, the affinity for Tyr-Phe-NHOH, and activity for the substrates with uncharged P2 side chains (Ala-Ala- , Ala-Arg- and Phe-Arg-2NA) were dramatically reduced, indicating the importance of the evolutionary conserved salt bridge Lys638- Glu516 for the modulation of DPP III substrate specificity.

Izvorni jezik
Engleski

Znanstvena područja
Kemija



POVEZANOST RADA


Projekt / tema
098-1191344-2860 - Proučavanje biomakromolekula računalnim metodama i razvoj novih algoritama (Sanja Tomić, )
098-1191344-2938 - Molekularna enzimologija i proteinske interakcije hidrolaza (Marija Abramić, )

Ustanove
Institut "Ruđer Bošković", 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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