Search Results - "Longo, Liam M."

A Bird’s-Eye View of Enzyme Evolution: Chemical, Physicochemical, and Physiological Considerations by Davidi, Dan, Longo, Liam M, Jabłońska, Jagoda, Milo, Ron, Tawfik, Dan S

“…Enzymes catalyze a vast range of reactions. Their catalytic performances, mechanisms, global folds, and active-site architectures are also highly diverse,…”
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An evolutionary history of the CoA‐binding protein Nat/Ivy by Longo, Liam M., Hirai, Hayate, McGlynn, Shawn Erin

“…Nat/Ivy is a diverse and ubiquitous CoA‐binding evolutionary lineage that catalyzes acyltransferase reactions, primarily converting thioesters into amides. At…”
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Primordial emergence of a nucleic acid-binding protein via phase separation and statistical ornithine-to-arginine conversion by Longo, Liam M., Despotovic, Dragana, Weil-Ktorza, Orit, Walker, Matthew J., Jabłońska, Jagoda, Fridmann-Sirkis, Yael, Varani, Gabriele, Metanis, Norman, Tawfik, Dan S.

“…De novo emergence demands a transition from disordered polypeptides into structured proteins with well-defined functions. However, can polypeptides confer…”
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Short and simple sequences favored the emergence of N-helix phospho-ligand binding sites in the first enzymes by Longo, Liam M., Petrović, Dušan, Kamerlin, Shina Caroline Lynn, Tawfik, Dan S.

“…The ubiquity of phospho-ligands suggests that phosphate binding emerged at the earliest stage of protein evolution. To evaluate this hypothesis and unravel its…”
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Simplified protein design biased for prebiotic amino acids yields a foldable, halophilic protein by Longo, Liam M., Lee, Jihun, Blaber, Michael

“…A compendium of different types of abiotic chemical syntheses identifies a consensus set of 10 “prebiotic” α-amino acids. Before the emergence of biosynthetic…”
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Protein design at the interface of the pre-biotic and biotic worlds by Longo, Liam M., Blaber, Michael

“…[Display omitted] ► A consensus set of 10 pre-biotic α-amino acids is identified from diverse abiotic sources. ► The properties of the pre-biotic set of amino…”
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Helicase-like functions in phosphate loop containing beta-alpha polypeptides by Vyas, Pratik, Trofimyuk, Olena, Longo, Liam M., Deshmukh, Fanindra Kumar, Sharon, Michal, Tawfik, Dan S.

“…The P-loop Walker A motif underlies hundreds of essential enzyme families that bind nucleotide triphosphates (NTPs) and mediate phosphoryl transfer (P-loop…”
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On the emergence of P-Loop NTPase and Rossmann enzymes from a Beta-Alpha-Beta ancestral fragment by Longo, Liam M, Jabłońska, Jagoda, Vyas, Pratik, Kanade, Manil, Kolodny, Rachel, Ben-Tal, Nir, Tawfik, Dan S

“…This article is dedicated to the memory of Michael G. Rossmann. Dating back to the last universal common ancestor, P-loop NTPases and Rossmanns comprise the…”
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Evidence for the emergence of β-trefoils by 'Peptide Budding' from an IgG-like β-sandwich by Longo, Liam M, Kolodny, Rachel, McGlynn, Shawn E

“…As sequence and structure comparison algorithms gain sensitivity, the intrinsic interconnectedness of the protein universe has become increasingly apparent…”
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Evolution of a protein folding nucleus by Xia, Xue, Longo, Liam M., Sutherland, Mason A., Blaber, Michael

“…The folding nucleus (FN) is a cryptic element within protein primary structure that enables an efficient folding pathway and is the postulated heritable…”
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Prebiotic protein design supports a halophile origin of foldable proteins by Longo, Liam M, Blaber, Michael

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Evolution and Design of Protein Structure by Folding Nucleus Symmetric Expansion by Longo, Liam M., Kumru, Ozan S., Middaugh, C. Russell, Blaber, Michael

“…Models of symmetric protein evolution typically invoke gene duplication and fusion events, in which repetition of a structural motif generates foldable, stable…”
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Alternative Folding Nuclei Definitions Facilitate the Evolution of a Symmetric Protein Fold from a Smaller Peptide Motif by Longo, Liam M., Lee, Jihun, Tenorio, Connie A., Blaber, Michael

“…Protein 3° structure symmetry is a defining feature of nearly one-third of protein folds and is generally thought to result from a combination of gene…”
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Peptide-RNA Coacervates as a Cradle for the Evolution of Folded Domains by Seal, Manas, Weil-Ktorza, Orit, Despotović, Dragana, Tawfik, Dan S., Levy, Yaakov, Metanis, Norman, Longo, Liam M., Goldfarb, Daniella

“…Peptide-RNA coacervates can result in the concentration and compartmentalization of simple biopolymers. Given their primordial relevance, peptide-RNA…”
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Polyamines Mediate Folding of Primordial Hyperacidic Helical Proteins by Despotović, Dragana, Longo, Liam M, Aharon, Einav, Kahana, Amit, Scherf, Tali, Gruic-Sovulj, Ita, Tawfik, Dan S

“…Polyamines are known to mediate diverse biological processes, and specifically to bind and stabilize compact conformations of nucleic acids, acting as chemical…”
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The evolutionary history of the HUP domain by Gruic-Sovulj, Ita, Longo, Liam M, Jabłońska, Jagoda, Tawfik, Dan S

“…Among the enzyme lineages that undoubtedly emerged prior to the last universal common ancestor is the so-called HUP, which includes Class I aminoacyl tRNA…”
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Correction to “Peptide-RNA Coacervates as a Cradle for the Evolution of Folded Domains” by Seal, Manas, Weil-Ktorza, Orit, Despotović, Dragana, Tawfik, Dan S., Levy, Yaakov, Metanis, Norman, Longo, Liam M., Goldfarb, Daniella

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Mutation choice to eliminate buried free cysteines in protein therapeutics by Xia, Xue, Longo, Liam M, Blaber, Michael

“…Buried free-cysteine (Cys) residues can contribute to an irreversible unfolding pathway that promotes protein aggregation, increases immunogenic potential, and…”
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Ab initio folding of a trefoil‐fold motif reveals structural similarity with a β‐propeller blade motif by Tenorio, Connie A., Longo, Liam M., Parker, Joseph B., Lee, Jihun, Blaber, Michael

“…Many protein architectures exhibit evidence of internal rotational symmetry postulated to be the result of gene duplication/fusion events involving a…”
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Utilization of diverse organophosphorus pollutants by marine bacteria by Despotović, Dragana, Aharon, Einav, Trofimyuk, Olena, Dubovetskyi, Artem, Cherukuri, Kesava Phaneendra, Ashani, Yacov, Eliason, Or, Sperfeld, Martin, Leader, Haim, Castelli, Andrea, Fumagalli, Laura, Savidor, Alon, Levin, Yishai, Longo, Liam M, Segev, Einat, Tawfik, Dan S

“…Anthropogenic organophosphorus compounds (AOPCs), such as phosphotriesters, are used extensively as plasticizers, flame retardants, nerve agents, and…”
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