• Calcium-binding proteins that are found in DISTAL KIDNEY TUBULES, INTESTINES, BRAIN, and other tissues where they bind, buffer and transport cytoplasmic calcium. (lookformedical.com)
  • Low molecular weight, calcium binding muscle proteins. (lookformedical.com)
  • Proteins to which calcium ions are bound. (lookformedical.com)
  • Secretagogins are EF HAND MOTIF-containing calcium-binding proteins that are involved in early neuronal migration and neurogenesis. (lookformedical.com)
  • These motifs are found in many proteins that are regulated by calcium. (lookformedical.com)
  • In this paper, we describe an extension of DeepView/Swiss-PdbViewer through which structural motifs may be defined and searched for in large protein structure databases, and we show that common structural motifs involved in stabilizing protein folds are present in evolutionarily and structurally unrelated proteins, also in deeply buried locations which are not obviously related to protein function. (biomedcentral.com)
  • The possibility to define custom motifs and search for their occurrence in other proteins permits the identification of recurrent arrangements of residues that could have structural implications. (biomedcentral.com)
  • The main reason for our interest in general ( i.e. , sequentially non-contiguous) structural motifs, is the crucial role played by side-chains in the correct packing of proteins. (biomedcentral.com)
  • Calcium binding induces conformational transitions in calmodulin that make it specifically active to particular target proteins. (biomedcentral.com)
  • Ca 2+ binding alters CaM conformation (compare the structure of Ca 2+ -free CaM [ 18 ] in Figure 1A with that of fully Ca 2+ bound CaM [ 19 ] in Figure 1B ) and changes its affinity to target proteins. (biomedcentral.com)
  • The term 'motif' is also describes a consensus sequence of amino acids, i.e. a partial sequence common to a number of different proteins, which may or may not adopt similar conformations in the different proteins. (vigyansarovar.com)
  • These helix-turn-helix structure found in many proteins(transcription factors). (vigyansarovar.com)
  • Large number of prokaryotic repressors belong to the helix-turn-helix family of proteins. (vigyansarovar.com)
  • Unlike HTH proteins, the actual DNA-binding motif of the HLH proteins is a stretch of about 13 "basic" amino acids adjacent to the HLH whose main role is in protein dimerization. (vigyansarovar.com)
  • Results ISWI is certainly a RanGTP-dependent microtubule-binding proteins Previously, NLS-containing MAPs have been made by sequential purification of MAPs and importin-Cbinding protein, leading to the identification of the NLS-MAP, Xnf7 (Maresca et al. (researchensemble.com)
  • Even so, the bound small percentage that was eluted by high sodium still contained a sigificant number of protein (Fig. 1 A). Because ISWI is certainly a nuclear proteins that were reported to bind MTs (Trachtulcov et al. (researchensemble.com)
  • In EPH-related tyrosine kinases, appears to mediate cell-cell initiated signal transduction via the binding of SH2-containing proteins to a conserved tyrosine that is phosphorylated. (embl.de)
  • The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [ ( PUBMED:9007998 ) ] involved in many biological processes. (embl.de)
  • Residues that compose the RNA-binding surface are conserved in a subgroup of SAM domain-containing proteins, suggesting that the function of the domain is conserved from yeast to humans. (embl.de)
  • Since the last overview of sPLA 2 -binding proteins (sPLA 2 -BPs) 10 years ago, several important discoveries have occurred in this area. (ijbs.com)
  • Helix-turn-helix (HTH) consists of two α-helices that constitutes of a right-handed three helical bundle with helices α 2 and α 3 arranged perpendicular to one another joined by a short strand of amino acids (figure below). (vigyansarovar.com)
  • The common feature of trihelix TFs in plants is that the DNA-binding domain contains three helical structures (helix-loop-helix-loop-helix). (biomedcentral.com)
  • In particular, the facilities for defining and searching for structural motifs now available in Swiss-PdbViewer include an interactive visual interface for defining structural motifs, and a machinery that is able to quickly search very large collections of structures for such motifs. (biomedcentral.com)
  • The analysis of the CaM structures in apo and Ca 2+ bound conformations as well as in complex with the target PKII molecule . (biomedcentral.com)
  • The apo (1DMO [18]) (A) and Ca 2+ bound (1CLL [19]) (B) structures of the CaM protein illustrate Ca 2+ induced conformational transitions. (biomedcentral.com)
  • Supersecondary structures or motifs, are simple and frequent combinations of the secondary structure with a specific geometric arrangement. (vigyansarovar.com)
  • Both crystal structures and the cryo-EM structure are found in a closed conformation, where the sialic acid binding site in P110 is occluded. (nature.com)
  • Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. (embl.de)
  • The analysis of conserved motifs and gene structures implied that the OfGT members in the same subfamily have similar conserved motifs and gene structures. (biomedcentral.com)
  • Using homology modeling and site-directed mutagenesis, we have localized the RNA-binding surface of the Smaug SAM domain and have elaborated the RNA consensus sequence required for binding. (embl.de)
  • Recognition of structural motifs, by comparison, is less well developed and much less frequently used, possibly due to a lack of easily accessible and easy to use software. (biomedcentral.com)
  • Our purpose in this paper is to present the mechanisms and facilities whereby structural motifs can be defined and searched for using the freely available and well established modelling tool Swiss-PdbViewer [ 26 ], and to present illustrative examples of the types of information that can be obtained by doing so. (biomedcentral.com)
  • In this study, we adopt a structural systems biology approach and develop a mathematical model to investigate various types of cooperative calcium-calmodulin interactions. (biomedcentral.com)
  • The results of our analysis reduce the gap between current understanding of intracellular calmodulin function at the structural level and physiological calcium-dependent calmodulin target activation experiments. (biomedcentral.com)
  • DNA binding), and others can be the part of larger structural assemblies. (vigyansarovar.com)
  • The RPA gene is the structural excretion loss-of-function, However Binding it from the corresponding growth( De Laat et al. (evakoch.com)
  • Today, recognition and classification of sequence motifs and protein folds is a mature field, thanks to the availability of numerous comprehensive and easy to use software packages and web-based services. (biomedcentral.com)
  • a P140 contains a large N-terminal domain and a smaller C-terminal domain, which is followed in sequence by a predicted transmembrane helix. (nature.com)
  • Anteroposterior patterning in Drosophila melanogaster is dependent on the sequence-specific RNA-binding protein Smaug, which binds to and regulates the translation of nanos (nos) mRNA. (embl.de)
  • In the sequence below, a conserved 5'-CGCA motif at the 5'-end of the TSD is underlined. (elifesciences.org)
  • YOs) through binding a yet uncharacterized GPCR, which triggers a signalling cascade, leading to inhibition of the ecdysis sequence. (biomedcentral.com)
  • The best known canonical binding mode of CaM interaction with a target is the "wrap-around" in which both N - and C -terminal domains of CaM bind to the same target protein region. (biomedcentral.com)
  • The four helix-loop-helix EF-hand Ca 2+ -binding sites (shown in different colours in Figure 1C ) are also capable of binding intracellular calcium's physiologically inactive competitor Mg 2+ (Figure 1D ) [ 20 , 21 ]. (biomedcentral.com)
  • We demonstrate here that the LRRC8C-LRRC8A(IL1 25 ) chimera comprising LRRC8C and 25 amino acids unique to the first intracellular loop (IL1) of LRRC8A has a heptameric structure like that of homologous pannexin channels. (elifesciences.org)
  • The eukaryotic HLH is physically larger than the prokaryotic counterpart HTH motif. (vigyansarovar.com)
  • The human pathogen Mycoplasma genitalium , a member of the pneumoniae cluster of mycoplasmas, binds to eukaryotic cells by means of its adhesion complex, the Nap. (nature.com)
  • α 3 is recognition helix that binds to DNA major groove through a series of hydrogen bonds and various Vander wall forces with exposed bases. (vigyansarovar.com)
  • Its major function is in DNA recognition, as α 3 helix is involved in the recognition and is known as " recognization helix " while another one stabilizes the interaction between DNA and Protein. (vigyansarovar.com)
  • Here we demonstrate that the sterile-alpha motif (SAM) domain of Smaug functions as an RNA-recognition domain. (embl.de)
  • These transcriptional factors belong to the basic helix-loop-helix-leucine zipper (bHLH-LZ) transcription factor family and bind the E-box DNA motifs in the promoter regions of target genes to enhance transcription. (molcells.org)
  • Our model predicts that the specificity and selectivity of CaM target regulation is likely to be due to the following factors: variations in the target-specific Ca 2+ dissociation and cooperatively effected dissociation constants, and variations in the number of Ca 2+ ions required to bind CaM for target activation. (biomedcentral.com)
  • Helix-turn-helix motif are involved in many processes that includes DNA repair, RNA metabolism, and protein-protein interaction . (vigyansarovar.com)
  • A family of G-protein-coupled receptors that was originally identified by its ability to bind N-formyl peptides such as N-FORMYLMETHIONINE LEUCYL-PHENYLALANINE. (lookformedical.com)
  • Leucine zipper motifs are usually found as part of a DNA-binding domain in many transcription factors , and are therefore these motifs are involved in regulating gene expression . (vigyansarovar.com)
  • Recently, we determined the crystal structure of the extracellular region of P110 and demonstrated its binding to sialic acid receptors 6 . (nature.com)
  • The 3' replication has freely activated by RNase Z surface, a mature binding in receptors( reviewed in Maraia and Lamichhane 2011). (evakoch.com)
  • By contrast, the cryo-ET structure shows an open conformation, where the binding site is accessible. (nature.com)
  • More than fifty years ago, Pauling and Corey described the two dominant forms of secondary structure, the α-helix and the β-sheet [ 1 ]. (biomedcentral.com)
  • The motif comprises two α helices, E and F that flank a loop of 12 contiguous residues. (vigyansarovar.com)
  • Five of the loop residues should contain an oxygen atom and preferably be aspartate or glutamate, as they act as calcium ligands (Figure below). (vigyansarovar.com)
  • The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. (embl.de)
  • We compare the predictions of our analysis with physiological dose-response curves taken from the literature, in order to provide a quantitative comparison of the effects of different mechanisms of cooperativity on calcium-calmodulin interactions. (biomedcentral.com)
  • b Network of hydrogen bonds in the vicinity of the oligosaccharide-binding site between P140 (blue) and P110N (yellow). (nature.com)
  • The X-ray structure of the casposase bound to DNA representing the product of integration reveals a tetramer with target DNA bound snugly between two dimers in which single-stranded casposon end binding resembles that of spacer 3'-overhangs. (elifesciences.org)
  • Residue 6 of the loop must be a glycine because the side chain of any other residue would disturb the structure of the motif. (vigyansarovar.com)
  • Glycine max is a calcium-loving crop. (mdpi.com)
  • Now, eight transporters were found to control the uptake and efflux of calcium. (mdpi.com)
  • A variation of the wrap-around CaM binding interaction has been shown to occur with the brain specific PKC substrate CAP-23/NAP-22 [ 23 ]. (biomedcentral.com)
  • These results suggest that the SAM domain might have a primary role in RNA binding. (embl.de)
  • The RNA-binding SAM domain of Smaug defines a new family of post-transcriptional regulators. (embl.de)
  • We show here that the SAM domain of Saccharomyces cerevisiae Vts1 binds RNA with the same specificity as Smaug and that Vts1 induces transcript degradation through a mechanism involving the cytoplasmic deadenylase CCR4. (embl.de)
  • In addition, the subfamilies have only one DNA-binding domain, except the GT-2 subfamily, which contains two DNA-binding domains [ 6 ]. (biomedcentral.com)
  • Some of these motifs are associated with a particular defined function (e.g. (vigyansarovar.com)
  • Thermal stability assays show that ERKi do not destabilise ERK2 (or ERK1) in vitro, suggesting that ERK2 turnover is a cellular consequence of ERKi binding. (babraham.ac.uk)
  • There are two globular domains in CaM, each containing a pair of helix-loop-helix Ca 2+ -binding motifs called EF-hands (Figure 1A , Figure 1B ). (biomedcentral.com)
  • Calcium is the most abundant mineral in the body and combines with phosphorus to form calcium phosphate in the bones and teeth. (lookformedical.com)
  • Finally, a number of side chains form a hydrophobic core between the α helices and thus must be hydrophobic. (vigyansarovar.com)
  • As a core metal ion in signaling transduction, calcium content is maintained in dynamic balance under normal circumstances. (mdpi.com)
  • Though these calcium transporters have been identified through genome-wide analysis, only a few of them were functionally verified. (mdpi.com)
  • Arrestin quenches G-protein activation by binding to phosphorylated photolyzed rhodopsin. (lookformedical.com)
  • Calcitriol increases intestinal absorption of calcium and phosphorus, and in concert with parathyroid hormone increases bone resorption. (lookformedical.com)