Investigating substrate specificity in arogenate versus prephenate dehydratases [PDF]
BMC BiologyBackground Phenylalanine is an essential aromatic amino acid that can only be synthesized de novo by microorganisms and plants. In microorganisms, phenylalanine is synthesized through the prephenate pathway, requiring the activity of a prephenate ...
Emily J. Clayton +4 more
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Decoding the substrate specificity landscape of a promiscuous enzyme through multi-substrate mutational scanning [PDF]
Nature CommunicationsSubstrate specificity is a defining feature of enzyme function, but its molecular underpinnings remain difficult to decode and engineer. Here, we leverage enzyme proximity sequencing (EP-Seq) to systematically map how single-point and combinatorial ...
Rosario Vanella +3 more
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Structural basis of SIRT7 nucleosome engagement and substrate specificity [PDF]
Nature CommunicationsChromatin-modifying enzymes target distinct residues within histones to finetune gene expression profiles. SIRT7 is an NAD+-dependent deacylase often deregulated in cancer, which deacetylates either H3 lysine 36 (H3K36) or H3K18 with high specificity ...
Carlos Moreno-Yruela +6 more
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Substrate Specificity of Biofilms Proximate to Historic Shipwrecks
Microorganisms, 2023 The number of built structures on the seabed, such as shipwrecks, energy platforms, and pipelines, is increasing in coastal and offshore regions. These structures, typically composed of steel or wood, are substrates for microbial attachment and biofilm ...
Rachel L. Mugge +2 more
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The Substrate Specificity of Fumarase
Journal of Biological Chemistry, 1968 Abstract The substrate specificity of fumarase has been studied by measuring the ability of the enzyme to hydrate or dehydrate derivatives of fumarate and l-malate. Fumarase was observed to hydrate fumarate and its derivatives in the order, fluorofumarate g fumarate g chlorofumarate g bromofumarate g acetylenedicarboxylate g iodofumarate g mesaconate ...
J W, Teipel, G M, Hass, R L, Hill
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Computational Protein Design Force Field Optimization: A Negative Design Approach [PDF]
, 2007 An accurate force field is essential to computational protein design and protein folding studies. Proper force field tuning is problematic, however, due in part to the incomplete modeling of the unfolded state.
Alvizo, Oscar
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Do Amino Acid Antiporters Have Asymmetric Substrate Specificity?
Biomolecules, 2023 Amino acid antiporters mediate the 1:1 exchange of groups of amino acids. Whether substrate specificity can be different for the inward and outward facing conformation has not been investigated systematically, although examples of asymmetric transport ...
Gregory Gauthier-Coles +3 more
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Substrate specificity of human ceramide kinase
Journal of Lipid Research, 2005 Previous studies in our laboratory have established ceramide kinase (CERK) as a critical mediator of eicosanoid synthesis. To date, CERK has not been well characterized in vitro.
Dayanjan S. Wijesinghe +5 more
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Dissecting the Cytochrome P450 OleP Substrate Specificity: Evidence for a Preferential Substrate
Biomolecules, 2020 The cytochrome P450 OleP catalyzes the epoxidation of aliphatic carbons on both the aglycone 8.8a-deoxyoleandolide (DEO) and the monoglycosylated L-olivosyl-8.8a-deoxyoleandolide (L-O-DEO) intermediates of oleandomycin biosynthesis.
Giacomo Parisi +10 more
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The loops facing the active site of prolyl oligopeptidase are crucial components in substrate gating and specificity [PDF]
, 2013 Prolyl oligopeptidase (POP) has emerged as a drug target for neurological diseases. A flexible loop structure comprising loop A (res. 189–209) and loop B (res. 577–608) at the domain interface is implicated in substrate entry to the active site.
Juliano, Luiz +10 more
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