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You can use the MEME Suite tools to discover novel (Motif Discovery) or known (Motif Enrichment) sequence motifs in sets of related DNA, RNA or protein sequences.You can also input sets of sequences and scan them for occurrences of motifs (Motif Scanning).Details on the format of your sequences are given under FASTA Sequence in the File Format Reference menu on the left, or just by clicking here.
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For proteins this pattern can either refer to a string of amino acids — a sequence motif — or the conformation and interaction of residues in space — a three-dimensional structural motif. It is important to qualify the term 'motif' to indicate precisely what is meant. Sequence motifs. A good illustration is the ATP-binding motif.
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In this work, we used RegExp associated to human motif-domain interaction (host-like) to identify potential functional motifs present on the IAV proteins (Additional file 1: Table S4). The identification of linear motif is a difficult task due to their small size, the large number of motifs in human proteins (more than one million motifs), and.
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The Neh2 domain of Nrf2 is located at the N-terminus of the transcription factor and harbors two Keap1-binding motifs, a low-affinity DLGex motif and a high-affinity ETGE motif 7,8.
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We name our proposed model as MOP, which is short for Motif-based Prompt Learning for Universal CDR. Specifically, we assign each user/item motif-based domain-specific embeddings (M-specific) that contain the structural topology within domains and further introduce motif-based domain-shared embeddings (M-shared) to capture the general.
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Confusion can occur when the terms motif and domain are seemingly used interchangeably. However, the term motif is also often used to describe regions of conserved sequence, and therefore, it may be appropriate to discuss both the zinc-finger motif and the zinc-finger domain. The zinc finger is easily recognized in a protein sequence through.
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A domain is an element of the protein's overall structure that is stable and often folds independently of the rest of the protein chain. Like the PH domain above, many domains are not unique to the protein products of one gene but instead appear in a variety of proteins. Proteins sharing more than a few common domains are encoded by members.
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The term domain, as used in DMP refers to a tertiary structure (folding unit) which is a distinct functional and/or structural unit of a protein, is independently stable and much larger unit than a motif. Domain annotation was carried out using the NCBI Batch Conserved domain (CD) Search 3.19 (Marchler-Bauer et al. 2011) a sensitive method that.
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The EF hand motif of calmodulin is used in a variety of Ca 2+ binding proteins. Figure 4.4.4 4.4. 4 shows the alignment of the first 50 residues of human calmodulin with four other human calcium-binding proteins. The EF hand (F12-L29) of calmodulin consists of the second half of the first helix (F12-L18), an intervening loop (F19-T28), and the.
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A motif is a short conserved sequence pattern associated with distinct functions of a protein or DNA. It is often associated with a distinct structural site performing a particular function. A typical motif, such as a Zn-finger motif, is ten to twenty amino acids long. A domain is also a conserved sequence pattern, defined as an independent.
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Background S-domain receptor-like kinases (SD-RLKs) are an important and multi-gene subfamily of plant receptor-like/pelle kinases (RLKs), which are known to play a significant role in the development and immune responses of Arabidopsis thaliana. The conserved cysteine residues in the extracellular domain of SD-RLKs make them interesting candidates for sensing reactive oxygen species (ROS.
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A. Domains. A structural domain is an element of the protein's overall structure that is stable and often folds independently of the rest of the protein chain. Like the PH domain above, many domains are not unique to the protein products of one gene, but instead appear in a variety of proteins. Proteins sharing more than a few common domains.
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Author Summary Domain-motif interactions are instrumental for many central cellular processes, and are therefore tightly regulated. Phosphorylation events are known modulators of protein-protein interactions in general, including domain-motif interactions. Here, we addressed the association of phosphorylation and domain-motif interaction taking a motif-centred view. We integrated human domain.
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