Degree Type

Dissertation

Date of Award

2013

Degree Name

Doctor of Philosophy

Department

Biochemistry, Biophysics and Molecular Biology

First Advisor

Basil J. Nikolau

Abstract

Acyl-ACP TE selectively hydrolyzes the thiol ester bonds of acyl-ACPs to release free fatty acids, and therefore plays an essential role in determining the output of fatty acid synthesis (FAS) pathway. Comprehensive understanding of acyl-ACP TE is demanded to tailor this biocatalyst for the application in metabolic engineering of FAS pathway. To explore the diversity of acyl-ACP TEs, a total of 31 TEs enzymes were sourced from a wide range of biological taxa, including plants and bacteria, and these were functionally characterized. The results demonstrate that acyl-ACP TEs have great functional diversity relative to the acyl chain length specificity as well as acyl chains that contain additional chemical functionalities. Multiple sequence alignment of plant and bacterial TEs, and structure modeling of CvFatB2 revealed that a previously proposed residue Cys348 is unlikely to be a catalytic residue. Instead, residues Asp309 and Glu347, in addition to previously proposed residues Asn311 and His313 (numbers are based on CvFatB2 sequence), were proposed to be involved in the catalysis of acyl-ACP TEs. In vivo activities of site-directed mutants proved this hypothesis, and a two-step catalytic mechanism for plant and bacterial acyl-ACP TEs is proposed. To identify the region(s) that determine the substrate specificity, two acyl-ACP TEs were used for a domain-shuffling study. Comparing the substrate specificities of the resulting chimeric TEs led to the identification of the most important region that determines the substrate specificity of acyl-ACP TE. Site-directed mutagenesis analysis proved that six residues play critical roles in determining the substrate specificity, including V194 in Fragment II, V217, N223, R226, and R227 in Fragment III, and I268 in Fragment IV. Another three residues, L257, I260, and L289, impact the catalytic activity of acyl-ACP TE, because they are in two proposed ACP binding motifs. A directed evolution approach was successfully developed to improve the fatty acid productivity of acyl-ACP TE. Screening a designed variant library resulted in recovery of TE variants with increased fatty acid productivity and more insight into the relationship between sequences and substrate specificities of acyl-ACP TE.

DOI

https://doi.org/10.31274/etd-180810-1276

Copyright Owner

Fuyuan Jing

Language

en

File Format

application/pdf

File Size

151 pages

Included in

Biochemistry Commons

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