InSiDDe: A Server for Designing Artificial Disordered Proteins

Antoine Schramm (1) , Philippe Lieutaud (1) , Stefano Gianni (2) , Sonia Longhi (1) , Christophe Bignon (1)

1 AFMB - Architecture et fonction des macromolécules biologiques
2 Department of Biochemical Sciences "Rossi Fanelli"

InSiDDe (In Silico Disorder Design) is a program for the in silico design of intrinsically disordered proteins of desired length and disorder probability. The latter is assessed using IUPred and spans values ranging from 0.55 to 0.95 with 0.05 increments. One to ten artificial sequences per query, each made of 50 to 200 residues, can be generated by InSiDDe. We describe the rationale used to set up InSiDDe and show that an artificial sequence of 100 residues with an IUPred score of 0.6 designed by InSiDDe could be recombinantly expressed in E. coli at high levels without degradation when fused to a natural molecular recognition element (MoRE). In addition, the artificial fusion protein exhibited the expected behavior in terms of binding modulation of the specific partner recognized by the MoRE. To the best of our knowledge, InSiDDe is the first publicly available software for the design of intrinsically disordered protein (IDP) sequences. InSiDDE is publicly available online.

Mots clés: recombinant protein; paramyxovirus; intrinsically disordered proteins; artificial protein; XD; Python3; NTAIL; IUPred; E. coli

Domaines: Biologie structurale [q-bio.BM]; Biochimie [q-bio.BM]; Maladies émergentes; Maladies infectieuses; Immunité innée; Biotechnologies; Bio-Informatique, Biologie Systémique [q-bio.QM]; Bactériologie; Virologie; Neurobiologie; Pharmacologie

Antoine Schramm, Philippe Lieutaud, Stefano Gianni, Sonia Longhi, Christophe Bignon. InSiDDe: A Server for Designing Artificial Disordered Proteins. International Journal of Molecular Sciences, 2018, 19 (1), pp.e91. ⟨10.3390/ijms19010091⟩. ⟨hal-02094786⟩