Dynamic Transmission of Protein Allostery without Structural Change: Spatial Pathways or Global Modes?

• Published in: Biophysical journal 2015-09, Vol.109 (6), p.1240-1250
• Main Authors: McLeish, Tom C.B., Cann, Martin J., Rodgers, Thomas L.
• Format: Article
• Language: English
• Subjects: Allosteric Regulation; Bacterial proteins; Bacterial Proteins - chemistry; Bacterial Proteins - genetics; Bacterial Proteins - metabolism; Cells; Computer Simulation; Correlation analysis; Corynebacterium glutamicum; Dimerization; Elasticity; Gram-positive bacteria; Models, Molecular; Mutation; Proteins and Nucleic Acids; Signal transduction
• ISSN: 0006-3495; 1542-0086
• DOI: 10.1016/j.bpj.2015.08.009

We examine the contrast between mechanisms for allosteric signaling that involve structural change, and those that do not, from the perspective of allosteric pathways. In particular we treat in detail the case of fluctuation-allostery by which amplitude modulation of the thermal fluctuations of the elastic normal modes conveys the allosteric signal, and address the question of what an allosteric pathway means in this case. We find that a perturbation theory of thermal elastic solids and nonperturbative approach (by super-coarse-graining elasticity into internal bending modes) have opposite signatures in their structure of correlated pathways. We illustrate the effect from analysis of previous results from GlxR of Corynebacterium glutamicum, an example of the CRP/FNR transcription family of allosteric homodimers. We find that the visibility of both correlated pathways and disconnected sites of correlated motion in this protein suggests that mechanisms of local elastic stretch and bend are recruited for the purpose of creating and controlling allosteric cooperativity.