Rodolpho do Aido-Machado

Dr. Rodolpho do Aido-Machado

University of the Free State, Bloemfontein, South Africa
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Research Focus & Metrics

Academic Career Length

22Years (2005-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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1 April 2006 in Journal of Molecular Biology
Verified
Journal Article
Closed access
DSDidier Salmon
Didier Salmon
RARodolpho do Aido-Machado
Rodolpho do Aido-Machado
ADAnne Diehl
Anne Diehl
MLMartina Leidert
Martina Leidert
OSOliver Schmetzer
Oliver Schmetzer
JPJosé R. Pires
José R. Pires

1 April 2005 in Journal of Molecular Biology
Verified
Journal Article
Closed access
JPJosé Ricardo Pires
José Ricardo Pires
CPChristoph Parthier
Christoph Parthier
RARodolpho do Aido-Machado
Rodolpho do Aido-Machado
UWUrs Wiedemann
Urs Wiedemann
LOLivia Otte
Livia Otte
HOHartmut Oschkinat
Hartmut Oschkinat

11 October 2022 in Catalysts
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Journal Article
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CJCheri Louise Jacobs
Cheri Louise Jacobs
RARodolpho do Aido-Machado
Rodolpho do Aido-Machado
CTCarmien Tolmie
Carmien Tolmie
MSMartha Sophia Smit
Martha Sophia Smit
DODiederik Opperman
Diederik Opperman
Selective oxyfunctionalization of non-activated C–H bonds remains a major challenge in synthetic chemistry. The biocatalytic hydroxylation of non-activated C–H bonds by cytochrome P450 monooxygenases (CYPs), however, offers catalysis with high regio- and stereoselectivity using molecular oxygen. CYP153s are a class of CYPs known for their selective terminal hydroxylation of n-alkanes and microorganisms, such as the bacterium Alcanivorax dieselolei, have evolved extensive enzymatic pathways for the oxyfunctionalization of various lengths of n-alkanes, including a CYP153 to yield medium-chain 1-alkanols. In this study, we report the characterization of the terminal alkane hydroxylase from A. dieselolei (CYP153A71) for the oxyfunctionalization of medium-chain n-alkanes in comparison to the well-known CYP153A6 and CYP153A13. Although the expected 1-alkanols are produced, CYP153A71 readily converts the 1-alkanols to the corresponding aldehydes, fatty acids, as well as α,ω-diols. CYP153A71 is also shown to readily hydroxylate medium-chain fatty acids. The X-ray crystal structure of CYP153A71 bound to octanoic acid is solved, yielding an insight into not only the regioselectivity, but also the binding orientation of the substrate, which can be used in future studies to evolve CYP153A71 for improved oxidations beyond terminal n-alkane hydroxylation.

19 March 2020 in Catalysts
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CTCarmien Tolmie
Carmien Tolmie
RARodolpho do Aido-Machado
Rodolpho do Aido-Machado
FFFelix Martin Ferroni
Felix Martin Ferroni
MSMartha Sophia Smit
Martha Sophia Smit
DODiederik Opperman
Diederik Opperman
Baeyer-Villiger monooxygenases (BVMOs) are flavin-dependent enzymes that primarily convert ketones to esters, but can also catalyze heteroatom oxidation. Several structural studies have highlighted the importance of the ‘control loop’ in BVMOs, which adopts different conformations during catalysis. Central to the ‘control loop’ is a conserved tryptophan that has been implicated in NADP(H) binding. BVMOAFL210 from Aspergillus flavus, however, contains a threonine in the equivalent position. Here, we report the structure of BVMOAFL210 in complex with NADP+ in both the ‘open’ and ‘closed’ conformations. In neither conformation does Thr513 contact the NADP+. Although mutagenesis of Thr513 did not significantly alter the substrate scope, changes in peroxyflavin stability and reaction rates were observed. Mutation of this position also brought about changes in the regio- and enantioselectivity of the enzyme. Moreover, lower rates of overoxidation during sulfoxidation of thioanisole were also observed.

30 January 2013 in Biomolecular NMR Assignments
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Journal Article
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RARodolpho do Aido-Machado
Rodolpho do Aido-Machado
DSDidier Salmon
Didier Salmon
JPJosé R. Pires
José R. Pires

9 August 2025 in Biomolecular NMR Assignments
Verified
Journal Article
Open access
RARodolpho do Aido-Machado
Rodolpho do Aido-Machado
NBNicola J. Baxter
Nicola J. Baxter
MRMichelle L. Rowe
Michelle L. Rowe
MPManoj B. Pohare
Manoj B. Pohare
SVSrdjan Vitovski
Srdjan Vitovski
JWJonathan P. Waltho
Jonathan P. Waltho
Flap endonuclease (FEN) enzymes are a group of metallonucleases that have essential roles in DNA repair and the maintenance of genomic resilience. They catalyse hydrolytic cleavage of a phosphodiester bond to remove 5′-flaps present on double-stranded DNA molecules formed during DNA replication. FEN locates a target scissile bond through the structural recognition of a pronounced bend in the double-stranded DNA substrate along with the presence of both a 5′-flap and a 1-nucleotide 3′-flap. FEN enzymes share a common structural architecture and are functionally conserved across all living organisms. In this work, we report the 1H, 15N and 13C backbone resonance assignments of residues 2–349 of FEN from Plasmodium falciparum (PfFEN349) in its substrate-free state. Using heteronuclear multidimensional NMR spectroscopy, 90% of all backbone resonances of PfFEN349 were assigned, with 298 backbone amide resonances out of 337 theoretically-detectible resonances (which exclude 10 prolines and the N-terminal glycine) identified in the 1H–15 N TROSY spectrum. Prediction of solution secondary structure content from a chemical shift analysis using the TALOS-N webserver is mostly in good agreement with an AlphaFold model of PfFEN349. The reported assignments provide a pathway for drug discovery as PfFEN349 is a potential target for the development of new inhibitors that could be utilised to control the incidence of malaria across the globe.