A consensus-guided approach yields a heat-stable alkane-producing enzyme and identifies residues promoting thermostability

作者：Shakeel Tabinda; Gupta Mayank; Fatma Zia; Kumar Rakesh; Kumar Raubins; Singh Rahul; Sharma Medha; Jade Dhananjay; Gupta Dinesh; Fatma Tasneem; Yazdani Syed Shams^*

来源：JOURNAL OF BIOLOGICAL CHEMISTRY, 2018, 293(24): 9148-9161.

DOI：10.1074/jbc.RA117.000639

• protein engineering
• structure-function
• enzyme mechanism
• enzyme mutation
• molecular modeling
• molecular dynamics
• biofuel
• aldehyde deformylating oxygenase
• long-chain alkane
• thermostable enzyme

Aldehyde-deformylating oxygenase (ADO) is an essential enzyme for production of long-chain alkanes as drop-in biofuels, which are compatible with existing fuel systems. The most active ADOs are present in mesophilic cyanobacteria, especially Nostoc punctiforme. Given the potential applications of thermostable enzymes in biorefineries, here we generated a thermostable (Cts)-ADO based on a consensus of ADO sequences from several thermophilic cyanobacterial strains. Using an in silico design pipeline and a metagenome library containing 41 hot-spring microbial communities, we created Cts-ADO. Cts-ADO displayed a 3.8-fold increase in pentadecane production on raising the temperature from 30 to 42 degrees C, whereas ADO from N. punctiforme (Np-ADO) exhibited a 1.7-fold decline. 3D structure modeling and molecular dynamics simulations of Cts- and Np-ADO at different temperatures revealed differences between the two enzymes in residues clustered on exposed loops of these variants, which affected the conformation of helices involved in forming the ADO catalytic core. In Cts-ADO, this conformational change promoted ligand binding to its preferred iron, Fe2, in the di-iron cluster at higher temperature, but the reverse was observed in Np-ADO. Detailed mapping of residues conferring Cts-ADO thermostability identified four amino acids, which we substituted individually and together in Np-ADO. Among these substitution variants, A161E was remarkably similar to Cts-ADO in terms of activity optima, kinetic parameters, and structure at higher temperature. A161E was located in loop L6, which connects helices H5 and H6, and supported ligand binding to Fe2 at higher temperatures, thereby promoting optimal activity at these temperatures and explaining the increased thermostability of Cts-ADO.

• 出版日期2018-6-15