- Journal article
Authors : Wilkins, Ryan Scott (2023) - Chorismate mutases have extensively been used as computational benchmarking systems for enzyme catalysis, yet the roles entropy and enthalpy play in catalysis are still not fully understood. Thus, it is important to better understand these enzymes for potential research or industrial applications. Here, we report the first crystal structure and kinetic characterization of a chorismate mutase from Bacillus pumilus. This enzyme exhibits a high degree of similar...
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- Journal article
Authors : Nikolaivits, Efstratios (2021) - Polyphenol oxidases (PPOs) are an industrially relevant family of enzymes, being involved in the post-harvest browning of fruits and vegetables, as well as in human melanogenesis. Their involvement lies in their ability to oxidize phenolic or polyphenolic compounds, that subsequently form pigments. PPO family includes tyrosinases and catechol oxidases, which in spite of their high structural similarity, exhibit different catalytic activities. Long-standing research efforts&...
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- Journal article
Authors : Berríos, Kiara N. (2023) - The partnership of DNA deaminase enzymes with CRISPR-Cas nucleases is now a well-established method
to enable targeted genomic base editing. However, an understanding of how Cas9 and DNA deaminases
collaborate to shape base editor (BE) outcomes has been lacking. Here, we support a novel mechanistic
model of base editing by deriving a range of hyperactive activation-induced deaminase (AID) base editors
(hBEs) and exploiting their characteristic&#...
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- Journal Article
Authors : Weidenbacher, Payton A.-B. (2023) - With the SARS-CoV-2 virus still circulating and evolving, there remains an outstanding question if variant-specific
vaccines represent the optimal path forward, or if other strategies might be more efficacious towards providing broad
protection against emerging variants. Here, we examine the efficacy of strain-specific variants of our previously
reported, pan-sarbecovirus vaccine candidate, DCFHP-alum, a ferritin nanoparticle functionalized with an engineered
form ...
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- Journal article
Authors : Dixit, Vaibhav A. (2021) - Hemoglobin mediated transport of dioxygen (O2) critically depends on the stability of the reduced (Fe2+) form of the Heme cofactors. Some protein mutations stabilize oxidized (Fe3+) state (Methemoglobin, Hb M) causing methemoglobinemia and can be lethal above 30 %. Majority of the analyses of factors influencing Hb oxidation are retrospective and give insights only for inner sphere mutations of Heme (His58, His87). Herein, we report the first all at...
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- Journal article
Authors : Atang, Alexandra E. (2023) - Spinocerebellar ataxia type 5 (SCA5) is a neurodegenerative disease caused by mutations in the SPTBN2 gene encoding the cytoskeletal protein β-III-spectrin. Previously, we demonstrated that a L253P missense mutation, localizing to the β-III-spectrin actin-binding domain (ABD), causes increased actin-binding affinity. Here we investigate the molecular consequences of nine additional ABD-localized, SCA5 missense mutations: V58M, K61E, T62I, K65E, F160C, D255G, T271I, Y272H, and H2...
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- Journal article
Authors : Bhattacharyya, Sanchari (2021) - The relationship between sequence variation and phenotype is poorly understood. Here we use metabolomic analysis to elucidate the molecular mechanism underlying the filamentous phenotype of E. coli strains that carry destabilizing mutations in Dihydrofolate Reductase (DHFR). We find that partial loss of DHFR activity causes reversible filamentation despite SOS response indicative of DNA damage, in contrast to thymineless death (TLD) achieved by complete inhibition of&#...
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- Journal article
Authors : Bufton, Joshua C. (2023) - UPF3B is a key nonsense-mediated mRNA decay (NMD) factor required for surveillance of mRNA and regulation of eukaryotic gene expression. Mutations in UPF3B cause intellectual disability. The underlying molecular mechanisms remain unexplored as the mutations lie in an uncharacterized region of UPF3B. Here, we show that UPF3B shares structural and functional homology to the Drosophila Behavior/Human Splicing protein family comprising an RNA-recognition motif-like domain&...
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- Journal article
Authors : Roy, Urmi (2023) - Among the multiple SARS-CoV-2 variants recently reported, the Delta variant has generated most perilous and widespread effects. Another variant, Omicron, has been identified specifically for its high transmissibility. Omicron contains numerous spike (S) protein mutations and in numbers much larger than those of its predecessor variants. In this report we discuss some essential structural aspects and time-based structure changes of a selected set of spike protein&#...
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- Journal article
Authors : Mitchell III, David (2023) - Chemical probing experiments have transformed RNA structure analysis, enabling highthroughput
measurement of base-pairing in living cells. Dimethyl sulfate (DMS) is one of
the most widely used structure probing reagents and has played a prominent role in
enabling next-generation single-molecule probing analyses. However, DMS has
traditionally only been able to probe adenine and cytosine nucleobases. We previously
showed that, using appropriate conditions,...
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- Journal article
Authors : Lucia, M. Acosta-Gamboa (2021) - Biosynthesis of L-ascorbate (AsA) in plants is carried out by a complex metabolic network, which involves D-mannose/L-galactose, D-galacturonate, L-gulose, and myo-inositol as main precursors. Arabidopsis lines over-expressing enzymes in the myo-inositol pathway have elevated AsA, accumulate more biomass of both aerial and root tissues, and are tolerant to abiotic stresses as shown by manual and digital phenotyping. We crossed myo-inositol oxygenase (MIOX4) over...
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- Journal article
Authors : Weekley, Claire M. (2021) - Since SARS-CoV-2 emerged in 2019, genomic sequencing has identified mutations in the viral RNA including in the receptor-binding domain of the Spike protein. Structural characterisation of the Spike carrying point mutations aids in our understanding of how these mutations impact binding of the protein to its human receptor, ACE2, and to therapeutic antibodies. The Spike G485R mutation has been observed in multiple isolates of the virus and mutation ...
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- Ebooks (Sách điện tử)
Authors : Stojaspal, Martin (2023) - Congenital dyserythropoietic anemia type I (CDA-I) is a rare hereditary disease characterized by ineffective erythropoiesis and associated mutations in two proteins – Codanin1 and CDIN1. The primary role of Codanin1 is nucleosome assembly regulation through interaction with ASF1. The role of recently discovered CDIN1 remains unknown, but CDIN1 has been known to interact directly with the C-terminus of Codanin1. Despite the critical role of identified mutations...
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- Journal Article
Authors : Sayer, Andrew P. (2023) - Microalgae play an essential role in global net primary productivity and global biogeochemical cycling, but despite their phototrophic lifestyle, over half of algal species depend on a supply of the corrinoid vitamin B12 (cobalamin) for growth. This essential organic micronutrient is produced only by a subset of prokaryotic organisms, which implies that for algal species to use this compound, they must first acquire it from external sources. Previous...
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