Disordered linkers in multidomain allosteric proteins: Entropic effect to favor the open state or enhanced local concentration to favor the closed state?

Protein Science : a Publication of the Protein Society
Maodong LiZhirong Liu

Abstract

There are many multidomain allosteric proteins where an allosteric signal at the allosteric domain modifies the activity of the functional domain. Intrinsically disordered regions (linkers) are widely involved in this kind of regulation process, but the essential role they play therein is not well understood. Here, we investigated the effect of linkers in stabilizing the open or the closed states of multidomain proteins using combined thermodynamic deduction and coarse-grained molecular dynamics simulations. We revealed that the influence of linker can be fully characterized by an effective local concentration [B]0 . When Kd is smaller than [B]0 , the closed state would be favored; while the open state would be preferred when Kd is larger than [B]0 . We used four protein systems with markedly different domain-domain binding affinity and structural order/disorder as model systems to understand the relationship between [B]0 and the linker length as well as its flexibility. The linker length is the main practical determinant of [B]0 . [B]0 of a flexible linker with 40-60 residues was determined to be in a narrow range of 0.2-0.6 mM, while a too short or too long length would dramatically decrease [B]0 . With the revealed [B]0 rang...Continue Reading

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Citations

Feb 19, 2019·Physical Chemistry Chemical Physics : PCCP·Miao YuZhirong Liu
Oct 30, 2019·Proceedings of the National Academy of Sciences of the United States of America·Charlotte S Sørensen, Magnus Kjaergaard
Jul 22, 2021·Computational and Structural Biotechnology Journal·Ilinka ClercJuan Cortés
Jul 18, 2021·Science Advances·Xiao YiMichael Travisano
Jul 27, 2021·Frontiers in Molecular Biosciences·Fabio C L AlmeidaIcaro P Caruso
Sep 14, 2019·Journal of Molecular Biology·Charlotte S SørensenMagnus Kjaergaard

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