Biochemical characterization of enzymes involved in the post-translational modification of lantibiotics

Ortega, Manuel A

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https://hdl.handle.net/2142/89190 Copy

Description

Title

Biochemical characterization of enzymes involved in the post-translational modification of lantibiotics

Author(s)

Ortega, Manuel A

Issue Date

2015-11-10

Director of Research (if dissertation) or Advisor (if thesis)

van der Donk, Wilfred A

Doctoral Committee Chair(s)

van der Donk, Wilfred A

Committee Member(s)

• Nair, Satish K
• Martinis, Susan A
• Hergenrother, Paul J

Department of Study

Biochemistry

Discipline

Biochemistry

Degree Granting Institution

University of Illinois at Urbana-Champaign

Degree Name

Ph.D.

Degree Level

Dissertation

Keyword(s)

• antibiotics
• biosynthesis
• enzymology
• X-ray crystallography
• biochemistry
• tRNA biology
• natural products
• ribosomal peptide natural products
• Ribosomally synthesized and post-translationally modified peptides (RiPPs)
• Lantipeptides
• Lanthipeptides
• Lantibiotics
• leader peptide
• nisin
• microbisporicin
• NAI-107
• dehydration
• thioether
• epilancin 15x
• halogenation
• decarboxylation
• proteolysis
• combinatorial biosynthesis
• post-translational modifications
• glutamylation

Abstract

Lantibiotics are ribosomally-synthesized and post-translationally modified peptides (RiPPs) characterized for exerting antimicrobial activity against bacterial strains resistant to commonly used antibiotics. During lantibiotic biosynthesis different enzymes install various post-translational modifications (PTMs) in a precursor peptide important for conferring their biological activity. Understanding how these biosynthetic enzymes catalyze their respective reactions is central to further develop these compounds for therapeutic applications. This dissertation presents the biochemical characterization of different lantibiotic biosynthetic enzymes responsible for the dehydration, decarboxylation, halogenation, and proteolysis of selected lantibiotics. During class I lantibiotic biosynthesis selected Ser/Thr residues in a precursor peptide are dehydrated by a lantibiotic dehydratase. Biochemical and structural studies in collaboration with the Nair Laboratory identified lantibiotic dehydratases to be glutamyl-tRNAGlu-dependent enzymes. The role of glutamyl-tRNAGlu in the dehydration process, the generality of glutamyl-tRNAGlu usage by lantibiotic dehydratases, as well as identity elements within the tRNA needed for recognition by lantibiotic dehydratases were established. A co-crystal structure of a lantibiotic dehydratase in complex with its substrate peptide is discussed, providing the first insights into substrate recognition by these enzymes. In addition to dehydroamino acids, selected lantibiotics may contain additional unusual PTMs such as decarboxylations and halogenations. In this thesis, the substrate specificity of a lantibiotic cysteine decarboxylase and a lantibiotic tryptophan halogenase was characterized using mass spectrometry and bioinformatic approaches. In contrast to many other lantibiotic biosynthetic enzymes, which employ the use of a leader peptide for substrate recognition, both enzymes catalyzed their respective reactions in a leader peptide independent manner. The potential of both enzymes to be used as general tools for modifying non-cognate peptides for various applications was investigated and discussed. Finally, the last step in lantibiotic maturation involves the removal of an N-terminal leader peptide by a lantibiotic peptidase. Bioinformatic, kinetic and mass spectrometry analysis revealed a consensus motif within precursor peptides important for cleavage by these peptidases. The use of this enzyme as a general tool for leader peptide removal from other RiPPs is explored and discussed. Together this dissertation signifies fundamental advances in RiPP biosynthesis with direct implications in the bioengineering of such compounds for clinical uses.

Graduation Semester

2015-12

Type of Resource

text

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Copyright 2015 Manuel A. Ortega

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