Literature DB >> 30046790

Trapping interactions between catalytic domains and carrier proteins of modular biosynthetic enzymes with chemical probes.

Andrew M Gulick1, Courtney C Aldrich.   

Abstract

Covering: up to early 2018 The Nonribosomal Peptide Synthetases (NRPSs) and Polyketide Synthases (PKSs) are families of modular enzymes that produce a tremendous diversity of natural products, with antibacterial, antifungal, immunosuppressive, and anticancer activities. Both enzymes utilize a fascinating modular architecture in which the synthetic intermediates are covalently attached to a peptidyl- or acyl-carrier protein that is delivered to catalytic domains for natural product elongation, modification, and termination. An investigation of the structural mechanism therefore requires trapping the often transient interactions between the carrier and catalytic domains. Many novel chemical probes have been produced to enable the structural and functional investigation of multidomain NRPS and PKS structures. This review will describe the design and implementation of the chemical tools that have proven to be useful in biochemical and biophysical studies of these natural product biosynthetic enzymes.

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Year:  2018        PMID: 30046790      PMCID: PMC6235721          DOI: 10.1039/c8np00044a

Source DB:  PubMed          Journal:  Nat Prod Rep        ISSN: 0265-0568            Impact factor:   13.423


  137 in total

Review 1.  Polyketide and nonribosomal peptide antibiotics: modularity and versatility.

Authors:  Christopher T Walsh
Journal:  Science       Date:  2004-03-19       Impact factor: 47.728

Review 2.  Biosynthesis of polyketides by trans-AT polyketide synthases.

Authors:  Jörn Piel
Journal:  Nat Prod Rep       Date:  2010-05-12       Impact factor: 13.423

Review 3.  Glycopeptide and lipoglycopeptide antibiotics.

Authors:  Dan Kahne; Catherine Leimkuhler; Wei Lu; Christopher Walsh
Journal:  Chem Rev       Date:  2005-02       Impact factor: 60.622

4.  A method for trapping intermediates of polyketide biosynthesis with a nonhydrolyzable malonyl-coenzyme A analogue.

Authors:  Dieter Spiteller; Claire L Waterman; Jonathan B Spencer
Journal:  Angew Chem Int Ed Engl       Date:  2005-11-04       Impact factor: 15.336

5.  Acyl Carrier Protein Cyanylation Delivers a Ketoacyl Synthase-Carrier Protein Cross-Link.

Authors:  Grace A R Thiele; Connie P Friedman; Kathleen J S Tsai; Joris Beld; Casey H Londergan; Louise K Charkoudian
Journal:  Biochemistry       Date:  2017-05-08       Impact factor: 3.162

6.  Molecular basis of Celmer's rules: the role of two ketoreductase domains in the control of chirality by the erythromycin modular polyketide synthase.

Authors:  I E Holzbaur; R C Harris; M Bycroft; J Cortes; C Bisang; J Staunton; B A Rudd; P F Leadlay
Journal:  Chem Biol       Date:  1999-04

7.  Dehydratase-specific probes for fatty acid and polyketide synthases.

Authors:  Fumihiro Ishikawa; Robert W Haushalter; Michael D Burkart
Journal:  J Am Chem Soc       Date:  2011-12-29       Impact factor: 15.419

8.  Mechanism-based protein cross-linking probes to investigate carrier protein-mediated biosynthesis.

Authors:  Andrew S Worthington; Heriberto Rivera; Justin W Torpey; Matthew D Alexander; Michael D Burkart
Journal:  ACS Chem Biol       Date:  2006-12-20       Impact factor: 5.100

9.  Structure of PA1221, a nonribosomal peptide synthetase containing adenylation and peptidyl carrier protein domains.

Authors:  Carter A Mitchell; Ce Shi; Courtney C Aldrich; Andrew M Gulick
Journal:  Biochemistry       Date:  2012-04-03       Impact factor: 3.162

10.  Crystal structures of metyrapone- and phenylimidazole-inhibited complexes of cytochrome P-450cam.

Authors:  T L Poulos; A J Howard
Journal:  Biochemistry       Date:  1987-12-15       Impact factor: 3.162

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  12 in total

Review 1.  Type II non-ribosomal peptide synthetase proteins: structure, mechanism, and protein-protein interactions.

Authors:  Matt J Jaremko; Tony D Davis; Joshua C Corpuz; Michael D Burkart
Journal:  Nat Prod Rep       Date:  2020-03-25       Impact factor: 13.423

2.  Structure and mechanistic analyses of the gating mechanism of elongating ketosynthases.

Authors:  Jeffrey T Mindrebo; Aochiu Chen; Woojoo E Kim; Rebecca N Re; Tony D Davis; Joseph P Noel; Michael D Burkart
Journal:  ACS Catal       Date:  2021-05-26       Impact factor: 13.700

3.  YbtT is a low-specificity type II thioesterase that maintains production of the metallophore yersiniabactin in pathogenic enterobacteria.

Authors:  Shannon I Ohlemacher; Yiquan Xu; Daniel L Kober; Mahnoor Malik; Jay C Nix; Tom J Brett; Jeffrey P Henderson
Journal:  J Biol Chem       Date:  2018-10-24       Impact factor: 5.157

4.  Interfacial plasticity facilitates high reaction rate of E. coli FAS malonyl-CoA:ACP transacylase, FabD.

Authors:  Laetitia E Misson; Jeffrey T Mindrebo; Tony D Davis; Ashay Patel; J Andrew McCammon; Joseph P Noel; Michael D Burkart
Journal:  Proc Natl Acad Sci U S A       Date:  2020-09-14       Impact factor: 11.205

Review 5.  The inherent flexibility of type I non-ribosomal peptide synthetase multienzymes drives their catalytic activities.

Authors:  Sarah Bonhomme; Andréa Dessen; Pauline Macheboeuf
Journal:  Open Biol       Date:  2021-05-26       Impact factor: 6.411

6.  Structure of a bound peptide phosphonate reveals the mechanism of nocardicin bifunctional thioesterase epimerase-hydrolase half-reactions.

Authors:  Ketan D Patel; Felipe B d'Andrea; Nicole M Gaudelli; Andrew R Buller; Craig A Townsend; Andrew M Gulick
Journal:  Nat Commun       Date:  2019-08-27       Impact factor: 14.919

7.  Dynamic visualization of type II peptidyl carrier protein recognition in pyoluteorin biosynthesis.

Authors:  Joshua C Corpuz; Larissa M Podust; Tony D Davis; Matt J Jaremko; Michael D Burkart
Journal:  RSC Chem Biol       Date:  2020-03-24

Review 8.  Probing the structure and function of acyl carrier proteins to unlock the strategic redesign of type II polyketide biosynthetic pathways.

Authors:  Ariana Sulpizio; Callie E W Crawford; Rebecca S Koweek; Louise K Charkoudian
Journal:  J Biol Chem       Date:  2021-01-23       Impact factor: 5.157

9.  Structure of putative tumor suppressor ALDH1L1.

Authors:  Yaroslav Tsybovsky; Valentin Sereda; Marcin Golczak; Natalia I Krupenko; Sergey A Krupenko
Journal:  Commun Biol       Date:  2022-01-10

Review 10.  Protein-protein interface analysis of the non-ribosomal peptide synthetase peptidyl carrier protein and enzymatic domains.

Authors:  Joshua C Corpuz; Javier O Sanlley; Michael D Burkart
Journal:  Synth Syst Biotechnol       Date:  2022-02-16
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