Aarya Venkat
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View article: ICEPIC: A Toolkit to Discover Ice Binding Proteins from Sequence
ICEPIC: A Toolkit to Discover Ice Binding Proteins from Sequence Open
Ice binding proteins, such as antifreeze proteins (AFPs) and ice nucleation proteins (INPs), are critical for survival in subzero environments and have wide-ranging applications in biotechnology, agriculture, and materials science. Current…
View article: Redox regulation and dynamic control of brain-selective kinases BRSK1/2 in the AMPK family through cysteine-based mechanisms
Redox regulation and dynamic control of brain-selective kinases BRSK1/2 in the AMPK family through cysteine-based mechanisms Open
In eukaryotes, protein kinase signaling is regulated by a diverse array of post-translational modifications, including phosphorylation of Ser/Thr residues and oxidation of cysteine (Cys) residues. While regulation by activation segment pho…
View article: Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms
Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms Open
In eukaryotes, protein kinase signaling is regulated by a diverse array of post-translational modifications (PTMs), including phosphorylation of Ser/Thr residues and oxidation of cysteine (Cys) residues. While regulation by activation segm…
View article: Author response: Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms
Author response: Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms Open
In eukaryotes, protein kinase signaling is regulated by a diverse array of post-translational modifications (PTMs), including phosphorylation of Ser/Thr residues and oxidation of cysteine (Cys) residues. While regulation by activation segm…
View article: Reviewer #1 (Public Review): Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms
Reviewer #1 (Public Review): Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms Open
In eukaryotes, protein kinase signaling is regulated by a diverse array of post-translational modifications (PTMs), including phosphorylation of Ser/Thr residues and oxidation of cysteine (Cys) residues. While regulation by activation segm…
View article: Reviewer #2 (Public Review): Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms
Reviewer #2 (Public Review): Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms Open
In eukaryotes, protein kinase signaling is regulated by a diverse array of post-translational modifications (PTMs), including phosphorylation of Ser/Thr residues and oxidation of cysteine (Cys) residues. While regulation by activation segm…
View article: Author response: Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms
Author response: Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms Open
In eukaryotes, protein kinase signaling is regulated by a diverse array of post-translational modifications (PTMs), including phosphorylation of Ser/Thr residues and oxidation of cysteine (Cys) residues. While regulation by activation segm…
View article: Reviewer #1 (Public Review): Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms
Reviewer #1 (Public Review): Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms Open
In eukaryotes, protein kinase signaling is regulated by a diverse array of post-translational modifications (PTMs), including phosphorylation of Ser/Thr residues and oxidation of cysteine (Cys) residues. While regulation by activation segm…
View article: Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms
Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms Open
In eukaryotes, protein kinase signaling is regulated by a diverse array of post-translational modifications (PTMs), including phosphorylation of Ser/Thr residues and oxidation of cysteine (Cys) residues. While regulation by activation segm…
View article: Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms
Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms Open
In eukaryotes, protein kinase signaling is regulated by a diverse array of post- translational modifications (PTMs). While regulation by activation segment phosphorylation in Ser/Thr kinases is well understood, relatively little is known a…
View article: Redox regulation and dynamic control of brain-selective kinases BRSK1/2 in the AMPK family through cysteine-based mechanisms
Redox regulation and dynamic control of brain-selective kinases BRSK1/2 in the AMPK family through cysteine-based mechanisms Open
In eukaryotes, protein kinase signaling is regulated by a diverse array of post-translational modifications, including phosphorylation of Ser/Thr residues and oxidation of cysteine (Cys) residues. While regulation by activation segment pho…
View article: XAI meets Biology: A Comprehensive Review of Explainable AI in Bioinformatics Applications
XAI meets Biology: A Comprehensive Review of Explainable AI in Bioinformatics Applications Open
Artificial intelligence (AI), particularly machine learning and deep learning models, has significantly impacted bioinformatics research by offering powerful tools for analyzing complex biological data. However, the lack of interpretabilit…
View article: Mechanistic and evolutionary insights into isoform-specific ‘supercharging’ in DCLK family kinases
Mechanistic and evolutionary insights into isoform-specific ‘supercharging’ in DCLK family kinases Open
Catalytic signaling outputs of protein kinases are dynamically regulated by an array of structural mechanisms, including allosteric interactions mediated by intrinsically disordered segments flanking the conserved catalytic domain. The dou…
View article: Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms
Redox Regulation of Brain Selective Kinases BRSK1/2: Implications for Dynamic Control of the Eukaryotic AMPK family through Cys-based mechanisms Open
In eukaryotes, protein kinase signaling is regulated by a diverse array of post-translational modifications (PTMs), including phosphorylation of Ser/Thr residues and oxidation of cysteine (Cys) residues. While regulation by activation segm…
View article: Mechanistic and evolutionary insights into isoform-specific ‘supercharging’ in DCLK family kinases
Mechanistic and evolutionary insights into isoform-specific ‘supercharging’ in DCLK family kinases Open
Catalytic signaling outputs of protein kinases are dynamically regulated by an array of structural mechanisms, including allosteric interactions mediated by intrinsically disordered segments flanking the conserved catalytic domain. The Dou…
View article: Author Response: Mechanistic and evolutionary insights into isoform-specific ‘supercharging’ in DCLK family kinases
Author Response: Mechanistic and evolutionary insights into isoform-specific ‘supercharging’ in DCLK family kinases Open
Catalytic signaling outputs of protein kinases are dynamically regulated by an array of structural mechanisms, including allosteric interactions mediated by intrinsically disordered segments flanking the conserved catalytic domain. The Dou…
View article: Mechanistic and evolutionary insights into isoform-specific ‘supercharging’ in DCLK family kinases
Mechanistic and evolutionary insights into isoform-specific ‘supercharging’ in DCLK family kinases Open
Catalytic signaling outputs of protein kinases are dynamically regulated by an array of structural mechanisms, including allosteric interactions mediated by intrinsically disordered segments flanking the conserved catalytic domain. The Dou…
View article: Mechanistic and evolutionary insights into isoform-specific ‘supercharging’ in DCLK family kinases
Mechanistic and evolutionary insights into isoform-specific ‘supercharging’ in DCLK family kinases Open
Catalytic signaling outputs of protein kinases are dynamically regulated by an array of structural mechanisms, including allosteric interactions mediated by intrinsically disordered segments flanking the conserved catalytic domain. The dou…
View article: Prevalence and Homology of the Pneumococcal Serine-Rich Repeat Protein at the Global Scale
Prevalence and Homology of the Pneumococcal Serine-Rich Repeat Protein at the Global Scale Open
An updated outlook on PsrP prevalence and serotype distribution sheds new light on the comprehensiveness of a PsrP-based protein vaccine. The protein is present in all vaccine serotypes and highly present in the next wave of potentially di…
View article: Mechanistic and evolutionary insights into isoform-specific ‘supercharging’ in DCLK family kinases
Mechanistic and evolutionary insights into isoform-specific ‘supercharging’ in DCLK family kinases Open
Catalytic signaling outputs of protein kinases are dynamically regulated by an array of structural mechanisms, including allosteric interactions mediated by intrinsically disordered segments flanking the conserved catalytic domain. The Dou…
View article: Tree visualizations of protein sequence embedding space enable improved functional clustering of diverse protein superfamilies
Tree visualizations of protein sequence embedding space enable improved functional clustering of diverse protein superfamilies Open
Protein language models, trained on millions of biologically observed sequences, generate feature-rich numerical representations of protein sequences. These representations, called sequence embeddings, can infer structure-functional proper…
View article: Modularity of the hydrophobic core and evolution of functional diversity in fold A glycosyltransferases
Modularity of the hydrophobic core and evolution of functional diversity in fold A glycosyltransferases Open
Hydrophobic cores are fundamental structural properties of proteins typically associated with protein folding and stability; however, how the hydrophobic core shapes protein evolution and function is poorly understood. Here, we investigate…
View article: Polymerization of the backbone of the pectic polysaccharide rhamnogalacturonan I
Polymerization of the backbone of the pectic polysaccharide rhamnogalacturonan I Open
Rhamnogalacturonan I (RG-I) is a major plant cell wall pectic polysaccharide defined by its repeating disaccharide backbone structure of [4)-α-d-GalA-(1,2)-α-l-Rha-(1,]. A family of RG-I:Rhamnosyltransferases (RRT) has previously been iden…