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Genome-wide analysis of lectins in cyanobacteria: from evolutionary mode to motif patterns
Lectins are glycoproteins that can bind to specific carbohydrates, and different lectin families exhibit different biological activities. They are...
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Positional motif analysis reveals the extent of specificity of protein-RNA interactions observed by CLIP
BackgroundCrosslinking and immunoprecipitation (CLIP) is a method used to identify in vivo RNA–protein binding sites on a transcriptome-wide scale....
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Genome-wide comparative analysis of the valine glutamine motif containing genes in four Ipomoea species
BackgroundGenes with valine glutamine (VQ) motifs play an essential role in plant growth, development, and resistance to biotic and abiotic stresses....
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In silico and computational analysis of zinc finger motif-associated homeodomain (ZF-HD) family genes in chilli (Capsicum annuum L)
Zinc finger-homeodomain (ZHD) proteins are mostly expressed in plants and are involved in proper growth and development and minimizing biotic and...
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biomapp::chip: large-scale motif analysis
BackgroundDiscovery biological motifs plays a fundamental role in understanding regulatory mechanisms. Computationally, they can be efficiently...
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Untangling the Evolution of the Receptor-Binding Motif of SARS-CoV-2
The spike protein determines the host-range specificity of coronaviruses. In particular, the Receptor-Binding Motif in the spike protein from...
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Biocaiv: an integrative webserver for motif-based clustering analysis and interactive visualization of biological networks
BackgroundAs an important task in bioinformatics, clustering analysis plays a critical role in understanding the functional mechanisms of many...
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Probable human origin of the SARS-CoV-2 polybasic furin cleavage motif
BackgroundThe key evolutionary step leading to the pandemic virus was the acquisition of the PRRA furin cleavage motif at the spike glycoprotein...
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Discovery and Characterization of Linear Motif Mediated Protein-Protein Complexes
There are myriads of protein-protein complexes that form within the cell. In addition to classical binding events between globular domains, many...
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Using Linear Motif Database Resources to Identify SH2 Domain Binders
The SH2-binding phosphotyrosine class of short linear motifs (SLiMs)Short linear motifs (SLiMs) are key conditional regulatory elements, particularly...
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vamos: variable-number tandem repeats annotation using efficient motif sets
Roughly 3% of the human genome is composed of variable-number tandem repeats (VNTRs): arrays of motifs at least six bases. These loci are highly...
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The transmembrane domain of Frey1 harbors a transplantable inhibitory motif for intramembrane proteases
Although aspartic intramembrane-cleaving proteases (I-CLIPs) are crucial switches of multiple signaling pathways and involved in several devastating...
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A context-dependent and disordered ubiquitin-binding motif
Ubiquitin is a small, globular protein that is conjugated to other proteins as a posttranslational event. A palette of small, folded domains...
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Analysis on RNA Motif-Based RNA Trafficking in Plants
Systemic RNA trafficking widely exists in plants and is critical for integrating the healthy development and responses to environmental cues....
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GNNMF: a multi-view graph neural network for ATAC-seq motif finding
BackgroundThe Assay for Transposase-Accessible Chromatin using sequencing (ATAC-seq) utilizes the Transposase Tn5 to probe open chromatic, which...
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Genome-wide identification of RNA recognition motif (RRM1) in Brassica rapa and functional analysis of RNA-binding protein (BrRBP) under low-temperature stress
BackgroundThe RNA recognition motif (RRM) is primarily engaged in the processing of mRNA and rRNA following gene transcription as well as the...
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Prediction of motif-mediated viral mimicry through the integration of host–pathogen interactions
One of the mechanisms viruses use in hijacking host cellular machinery is mimicking Short Linear Motifs (SLiMs) in host proteins to maintain their...
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Protein–Protein Interfaces as Druggable Targets: A Common Motif of the Pyridoxal-5′-Phosphate-Dependent Enzymes to Receive the Coenzyme from Its Producers
AbstractPyridoxal-5′-phosphate (PLP), a phosphorylated form of vitamin B6, acts as a coenzyme for numerous reactions, including those changed in...
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The NTE domain of PTENα/β promotes cancer progression by interacting with WDR5 via its SSSRRSS motif
PTENα/β, two variants of PTEN, play a key role in promoting tumor growth by interacting with WDR5 through their N-terminal extensions (NTEs). This...
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Dishevelled2 activates WGEF via its interaction with a unique internal peptide motif of the GEF
The Wnt-planar cell polarity (Wnt-PCP) pathway is crucial in establishing cell polarity during development and tissue homoeostasis. This pathway is...
