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Results for “Receptors, Pattern Recognition”

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At least 883 records · Page 49Linked to original sources

PubMed1985

Visual scanning behaviour in honeybees.

Freely flying bees were rewarded with sugar solution on a variety of black-and-white shapes as well as on coloured gratings in various training situations. In subsequent dual-choice tests, the bees' discrimination between the various shapes was measured. In addition, the bees were video-filmed while flying in front of the shapes. The scanning patterns thus obtained were then quantified in order to characterize scanning behaviour and its relationship to the geometrical parameters of the scanned shapes, investigate whether scanning plays a role in pattern discrimination and examine the influence of training on the characteristics of scanning. The scanning patterns clearly mirror the contours of the scanned shape in all cases, i.e. the bees fly along the contours contained in the shape. This behaviour does not depend on whether the scanned shape is one that was previously rewarded, or one that is completely novel to the bees. Comparison of the results of quantifying the scanning patterns with the results of dual-choice tests reveals that scanning behaviour is independent of discrimination performance. On the average, horizontal scanning directions occur more often than vertical directions. Variations of the training situation produce measurable differences in scanning behavior. However, except in the case of vertical scanning on a vertical grating, these differences are quite small, indicating that following contours is a largely stereotyped behaviour. Horizontal gratings are very well discriminated from vertical ones even if they offer contrast to only one receptor type, i.e. blue or green, demonstrating that the direction of contours is visible to the pattern recognition system even under these conditions. However, vertical and horizontal coloured gratings offering only blue-contrast do not elicit contour-following, whereas gratings offering only green-contrast do. Thus, the bees' scanning behaviour is colour-blind and most probably governed by the green receptors. We suggest that contour-following is the by-product of a behavioural mode which serves to prevent retinal image movement during flight in front of a contoured visual pattern.

Animals↗

PubMed2004

Receptor specificity of H5 influenza virus escape mutants.

The binding of viruses to synthetic polyacrylamide (PAA)-based sialylglycoconjugates was used to characterize the receptor specificities of antibody escape mutants of the influenza virus A/Mallard/Pennsylvania/10218/84 (H5N2). The sialylglycoconjugates that were used carried identical terminal Neu5Acalpha2-3Gal moieties but differed in the structure of the next saccharide residue(s). Our data show that mutations in the vicinity of the haemagglutinin (HA) receptor-binding site (RBS) effect the recognition of the third saccharide residue and change the affinity pattern of binding. The affinity of the majority of the escape mutants for sialyl receptors increased compared to the parental strain.

Carbohydrate Sequence↗

PubMed1990

Chiral recognition by central benzodiazepine receptors.

1,4-Benzodiazepines in solution accommodate two chiral conformations. Two closely related quartets following the substitution pattern: 3-unsubstituted, 3S-methyl, 3R-methyl, 3,3-dimethyl, were synthesized and the binding strength of the compounds to the benzodiazepine receptor was tested. The intertwining effects of (i) conformational preference of free molecules, (ii) conformational recognition by the receptor, and (iii) axial and equatorial methyl substituents, were separated by computation. It is concluded that conformation M enriched by 3S-methyl and impoverished by 3R-methyl enantiomers is recognized by the receptor, whereas the binding is strongly and moderately hindered by axial and equatorial methyl substituents, respectively.

Animals↗

PubMed2004

Association between cognitive performance and striatal dopamine binding is higher in timing and motor tasks in patients with schizophrenia.

The basal ganglia have received increasing attention with regard to their role in time pacing, motor function and other components of cognition. The aim of this study was to test whether the finer the motor activity and/or time perception performance were, the higher the striatal dopamine D(2) binding would be. Single photon emission computed tomography (SPECT) with [(123)I]iodobenzamide (IBZM) was performed to measure striatal D(2) receptor densities. A battery of neuropsychological tests, including the Wisconsin Card Sorting Test (WCST), the finger tapping test (FTT), and an attention test, was performed by patients with schizophrenia. Results indicated a strong correlation between the FTT score and striatal D(2) receptor binding. Neuroleptic dosage plays an important role in the relationship between cognitive tasks and striatal dopamine receptor densities. In addition, the striatal D(2) receptor density is more significantly correlated with attentional tests that consider the time effect than those that do not. Among the three tests performed, the WCST was least significantly correlated with striatal D(2) receptor densities. A decrease in striatal dopamine D(2) receptor density seems to be associated with impaired performance on optimal timing tasks and motor processing in patients with schizophrenia.

Adult↗

PubMed2006

Statistical analysis and prediction of functional residues effective for GPCR-G-protein coupling selectivity.

One of the important issues in G-protein-coupled receptor (GPCR) functional analysis is the mechanism of GPCR-G-protein coupling selectivity. G-proteins are classified into Gi/o, Gq/11 and Gs families. Although several experimental and computational analyses have been attempted, the mechanism remains unknown to this day. In this study, we have analyzed the multiple sequence alignments of GPCRs of known coupling selectivities by mapping onto the tertiary structure of rhodopsin. We identified several functional residue sites in GPCRs related to coupling selectivity, which are located mainly at the intracellular loops, and found that the occurrence of positively/negatively charged amino acids of the characteristic residues varies depending on the G-protein coupling selectivity. Especially, the occurrence of positively charged amino acids in receptors coupling to Gs family is less than that in receptors coupling to Gi/o and Gq/11 families. It is interesting that some characteristic residues are located near the extracellular terminus of transmembrane helices, which is far from the GPCR/G-protein binding interface. In most of the receptors coupling to Gs family, the occurrence of proline on the position corresponding to the 170th residue on rhodopsin is rare. These findings are vital to improving our understanding of the mechanism of G-protein coupling selectivity.

Amino Acid Sequence↗

PubMed2005

Visual recognition memory is related to basic expression level of NMDA receptor NR1/NR2B subtype in hippocampus and striatum of rats.

AIM: To examine the basic expression levels of N-methyl-D-aspartate (NMDA) receptor NR1 and NR2B subunits in six brain regions of Sprague-Dawley (SD) rats with different visual recognition memory. METHODS: Rats were tested by a novel-object-recognition model and grouped into the high and the low visual recognition memory groups. The expression levels of NR1 and NR2B subunits in the cortex, hippocampus, striatum, amygdala, diencephalon, and olfactory bulb were measured by semiquantitative immunoblotting. RESULTS: The NR1 and NR2B subunit protein levels in the hippocampus of the high visual recognition memory group were 35.9% (P<0.01) and 53.4% (P<0.05) higher respectively than those in the low group. In addition, the NR2B level in the striatum in the high visual recognition memory group was 25.0% (P<0.05) higher than that in the low one. However, no significant difference was found in the levels of the subunits between the two groups in other brain regions. CONCLUSION: The visual recognition memory in rats is related to the basic expression level of NMDA receptor NR1/NR2B subtype in the hippocampus and striatum.

Animals↗

PubMed1998

Differential gene induction by glucocorticoid and progesterone receptors.

The question of how glucocorticoid, progesterone, androgen, and mineralocorticoid receptors can generate distinct patterns of gene expression despite similar, if not identical, DNA sequence recognition properties is a central question in steroid biology. This study addresses the hypothesis that glucocorticoid and progesterone receptors can differentially utilize the promoter context created by a series of receptor recognition sites. This hypothesis predicts that for different receptors an individual (often suboptimal) binding site contributes to the overall response element activity to a different degree. Therefore, mutations to an individual binding site of a multipartite hormone response element may differentially affect the response to different steroids. This study tests this hypothesis by introducing mutations into a receptor recognition site that is part of a hormone responsive promoter derived from the mouse mammary tumor virus. We find that weakening one site of a multipartite element differentially affects glucocorticoid and progestin signaling both in fibroblasts and in mammary carcinoma cells. A similar test was done in a simplified promoter context comprised only of a TATA box and a pair of receptor recognition sites. Mutations introduced into one of these sites impaired glucocorticoid response more than the progestin response. However, high receptor expression can partially overcome the effect of some target site mutations. Thus both receptor expression levels and the inherent ability to utilize the context created by a multipartite response element contribute to quantitative differences in the response to receptors that share DNA sequence recognition properties.

Animals↗

PubMed1985

Lymphocyte traffic and the skin.

Lymphocyte migration patterns into and within lymphoid organs and nonlymphoid organs such as the skin as highly regulated and controlled by a variety of factors, some of which we are beginning to understand at a basic cellular and molecular level. In the case of lymphocyte migration into lymphoid organs, recirculatory patterns and preferences appear to be mediated by selective recognition via lymphocyte membrane receptors of distinctive determinants expressed by specialized endothelial cells in different organ sites. A similar model in which endothelial cells in the skin share common determinants with endothelial cells in peripheral lymph nodes can be developed to explain the migration patterns of lymphocytes from the blood into the skin. Cells that have undergone blast transformation in the microenvironment of the skin or peripheral lymph nodes, or both, appear to recirculate selectively within this particular sphere of immunologic influence, whereas other cells that undergo this transformation in the microenvironment of the gastrointestinal tract and its draining mesenteric lymph nodes selectively recirculate within that sphere of immunologic influence. This preferential recirculation increases the probability that the immunologic defense needs of a given region or tissue such as the skin will be met efficiently and appropriately. Finally, some of the phenotypic characteristics favoring the movement of lymphocytes from the bloodstream into the dermis (such as recent stimulation and the presence of T-cell surface markers) also seem to favor lymphocyte migration into or retention in the epidermis. However, under appropriate circumstances, epidermotropism can be exhibited by both major subsets of T cells as well as a variety of non-T cells.

Animals↗

PubMed1993

Phosphorylation sites of myelin basic protein by a catalytic fragment of non-receptor type protein-tyrosine kinase p72syk and comparison with those by insulin receptor kinase.

Myelin basic protein has been used as a model substrate for determination of substrate recognition motif of various protein kinases. In this report phosphorylated sites of bovine brain myelin basic protein were studied with a catalytic fragment of protein-tyrosine kinase p72syk. Three of four tyrosine residues in myelin basic protein were phosphorylated by this kinase. Major phosphorylated site was 134Y and minor phosphorylated sites were 68Y and 127Y. As the phosphorylation site by p56lck was only 68Y, the recognition motif of p72syk was quite different from that of p56lck. Furthermore, the fact that elution pattern on HPLC of the phosphopeptides obtained by insulin receptor kinase was different from that by p72syk suggested that the recognition motif of p72syk was also different from that of insulin receptor kinase. These results may suggest that each protein-tyrosine kinase has a specific substrate recognition motif.

Amino Acid Sequence↗

PubMed1977

[Cellular bases of immunological recognition. The precursors of antigen-binding T- and B-lymphocytes and the patterns of their maturation].

The peculiarities of carefully studied immunoglobulin receptors of the specialized clones of B-lymphocytes are described. These latter are precursors of antibody-forming cells but play only a limited role in the recognition of foreign antigens which is realized by T-lymphocytes. The differentiation of T- and B-lymphocytes from the single precursor, a bone marrow stem hemopoietic cell, proceeds in the bone marrow itself, thymus and peripheral lymphoid organs in several discrete stages. At each of these stages the cells have definite properties and, in some cases, may be separated one from another. The modern data are given concerning the properties of cells at every stage of antigen-independent differentiation of T- and B-lymphocytes which proceeds during embryonic and postnatal development, its alternative pathways, factors of regulation, role of local microenvironment and possibilities of modelling in vitro.

Animals↗

PubMed2001

Novel hyperbranched glycomimetics recognized by the human mannose receptor: quinic or shikimic acid derivatives as mannose bioisosteres.

The mannose receptor mediates the internalization of a wide range of molecules or microorganisms in a pattern recognition manner. Therefore, it represents an attractive entry for specific drug, gene, or antigen delivery to macrophages and dendritic cells. In an attempt to design novel effective synthetic mannose receptor ligands, quinic and shikimic acid were selected as putative mannose mimics on the basis of X-ray crystallographic data from the related rat mannose-binding lectin. As the mannose receptor preferentially binds to molecules displaying several sugar residues, fluorescein-labeled cluster quinic and shikimic acid derivatives with valencies of two to eight were synthesized. Their mannose receptor mediated uptake was assayed on monocyte-derived human dendritic cells by cytofluorimetric analysis. Mannose-receptor specificity was further assessed by competitive inhibition assays with mannan, by confocal microscopy analysis, and by expression of the mannose receptor in transfected Cos-1 cells. Constructs derived from both quinic and shikimic acid were efficiently recognized by the mannose receptor with an optimum affinity for the molecules with a valency of four. As a result, commercially available quinic and shikimic acids appear as stable mannose bioisosteres, which should prove valuable tools for specific cell delivery.

Animals↗

PubMed2003

Evolutionarily conserved pattern of gene segment usage within the mammalian TCRbeta locus.

Antigen receptor gene rearrangement is mediated by interactions between the VDJ recombinase and the recombination signal sequences that flank the antigen receptor gene segments. In this report I present phylogenetic analyses that suggest a remarkable evolutionary conservation of the recombination signal sequences flanking some of the orthologous T-cell receptor-beta locus gene segments between human and mouse. Comparison of published data on the usage of the same gene segments between human and mouse indicates similar conservation in the shape of the primary T-cell receptor-beta repertoire. I propose that interactions between the recombinase and its cognate recognition sequences play a hitherto underestimated role in the formation of the specific pattern of the primary, combinatorial antigen receptor repertoire and that this pattern appears to be conserved in diverse mammalian species. Generation of a conserved pattern of the primary T-cell receptor repertoire may be critical for efficient selection of immature T lymphocytes.

Animals↗

PubMed1994

Molecular surface recognition by a computer vision-based technique.

Correct docking of a ligand onto a receptor surface is a complex problem, involving geometry and chemistry. Geometrically acceptable solutions require close contact between corresponding patches of surfaces of the receptor and of the ligand and no overlap between the van der Waals spheres of the remainder of the receptor and ligand atoms. In the quest for favorable chemical interactions, the next step involves minimization of the energy between the docked molecules. This work addresses the geometrical aspect of the problem. It is assumed that we have the atomic coordinates of each of the molecules. In principle, since optimally matching surfaces are sought, the entire conformational space needs to be considered. As the number of atoms residing on molecular surfaces can be several hundred, sampling of all rotations and translations of every patch of a surface of one molecule with respect to the other can reach immense proportions. The problem we are faced with here is reminiscent of object recognition problems in computer vision. Here we borrow and adapt the geometric hashing paradigm developed in computer vision to a central problem in molecular biology. Using an indexing approach based on a transformation invariant representation, the algorithm efficiently scans groups of surface dots (or atoms) and detects optimally matched surfaces. Potential solutions displaying receptor--ligand atomic overlaps are discarded. Our technique has been applied successfully to seven cases involving docking of small molecules, where the structures of the receptor--ligand complexes are available in the crystallographic database and to three cases where the receptors and ligands have been crystallized separately. In two of these three latter tests, the correct transformations have been obtained.

Algorithms↗

PubMed2004

Interaction of soluble form of recombinant extracellular TLR4 domain with MD-2 enables lipopolysaccharide binding and attenuates TLR4-mediated signaling.

TLRs have been implicated in recognition of pathogen-associated molecular patterns. TLR4 is a signaling receptor for LPS, but requires MD-2 to respond efficiently to LPS. The purposes of this study were to examine the interactions of the extracellular TLR4 domain with MD-2 and LPS. We generated soluble forms of rTLR4 (sTLR4) and TLR2 (sTLR2) lacking the putative intracellular and transmembrane domains. sTLR4 consisted of Glu(24)-Lys(631). MD-2 bound to sTLR4, but not to sTLR2 or soluble CD14. BIAcore analysis demonstrated the direct binding of sTLR4 to MD-2 with a dissociation constant of K(D) = 6.29 x 10(-8) M. LPS-conjugated beads precipitated MD-2, but not sTLR4. However, LPS beads coprecipitated sTLR4 and MD-2 when both proteins were coincubated. The addition of sTLR4 to the medium containing the MD-2 protein significantly attenuated LPS-induced NF-kappaB activation and IL-8 secretion in wild-type TLR4-expressing cells. These results indicate that the extracellular TLR4 domain-MD-2 complex is capable of binding LPS, and that the extracellular TLR4 domain consisting of Glu(24)-Lys(631) enables MD-2 binding and LPS recognition to TLR4. In addition, the use of sTLR4 may lead to a new therapeutic strategy for dampening endotoxin-induced inflammation.

Amino Acid Sequence↗

PubMed2006

Investigating the dopaminergic basis of extraversion in humans: A multilevel approach.

A recent theory suggests that the agency facet of Extraversion (E) is based on brain dopamine (DA). The paucity of human data relevant to this model is probably due to the lack of widely accessible noninvasive psychophysiological indices and well-established behavioral measures sensitive to both E and manipulations of DA activity. Aiming to identify such measures, the authors assessed the electroencephalogram and n-back task performance in groups of introverts and extraverts after administration of either placebo or a selective DA D2 receptor antagonist. As predicted, the antagonist's effects on n-back reaction time measures and frontal versus parietal electroencephalogram theta activity were strongly and specifically modulated by E. New research avenues and theoretical extensions suggested by these results are discussed.

Adolescent↗

PubMed2003

Pattern recognition by TREM-2: binding of anionic ligands.

We recently described the cloning of murine triggering receptor expressed by myeloid cells (TREM) 2, a single Ig domain DNAX adaptor protein 12-associated receptor expressed by cells of the myeloid lineage. In this study, we describe the identification of ligands for TREM-2 on both bacteria and mammalian cells. First, by using a TREM-2A/IgG1-Fc fusion protein, we demonstrate specific binding to a number of Gram-negative and Gram-positive bacteria and to yeast. Furthermore, we show that fluorescently labeled Escherichia coli and Staphylococcus aureus bind specifically to TREM-2-transfected cells. The binding of TREM-2A/Ig fusion protein to E. coli can be inhibited by the bacterial products LPS, lipoteichoic acid, and peptidoglycan. Additionally, binding can be inhibited by a number of other anionic carbohydrate molecules, including dextran sulfate, suggesting that ligand recognition is based partly on charge. Using a sensitive reporter assay, we demonstrate activation of a TREM-2A/CD3zeta chimeric receptor by both bacteria and dextran sulfate. Finally, we demonstrate binding of TREM-2A/Ig fusion to a series of human astrocytoma lines but not to a variety of other cell lines. The binding to astrocytomas, like binding to bacteria, is inhibited by anionic bacterial products, suggesting either a similar charge-based ligand recognition method or overlapping binding sites for recognition of self- and pathogen-expressed ligands.

Animals↗

PubMed2005

A method for the prediction of GPCRs coupling specificity to G-proteins using refined profile Hidden Markov Models.

BACKGROUND: G- Protein coupled receptors (GPCRs) comprise the largest group of eukaryotic cell surface receptors with great pharmacological interest. A broad range of native ligands interact and activate GPCRs, leading to signal transduction within cells. Most of these responses are mediated through the interaction of GPCRs with heterotrimeric GTP-binding proteins (G-proteins). Due to the information explosion in biological sequence databases, the development of software algorithms that could predict properties of GPCRs is important. Experimental data reported in the literature suggest that heterotrimeric G-proteins interact with parts of the activated receptor at the transmembrane helix-intracellular loop interface. Utilizing this information and membrane topology information, we have developed an intensive exploratory approach to generate a refined library of statistical models (Hidden Markov Models) that predict the coupling preference of GPCRs to heterotrimeric G-proteins. The method predicts the coupling preferences of GPCRs to Gs, Gi/o and Gq/11, but not G12/13 subfamilies. RESULTS: Using a dataset of 282 GPCR sequences of known coupling preference to G-proteins and adopting a five-fold cross-validation procedure, the method yielded an 89.7% correct classification rate. In a validation set comprised of all receptor sequences that are species homologues to GPCRs with known coupling preferences, excluding the sequences used to train the models, our method yields a correct classification rate of 91.0%. Furthermore, promiscuous coupling properties were correctly predicted for 6 of the 24 GPCRs that are known to interact with more than one subfamily of G-proteins. CONCLUSION: Our method demonstrates high correct classification rate. Unlike previously published methods performing the same task, it does not require any transmembrane topology prediction in a preceding step. A web-server for the prediction of GPCRs coupling specificity to G-proteins available for non-commercial users is located at http://bioinformatics.biol.uoa.gr/PRED-COUPLE.

Algorithms↗

PubMed2003

Single-nucleotide polymorphisms in the Toll-like receptor 9 gene (TLR9): frequencies, pairwise linkage disequilibrium, and haplotypes in three U.S. ethnic groups and exploratory case-control disease association studies.

TLR9 is a mammalian Toll-like receptor homologue that appears to function as an innate immune pattern recognition protein for motifs that are far more common in bacterial than in mammalian DNA. The gene was sequenced in 71 subjects from three self-identified U.S. ethnic groups to identify single-nucleotide polymorphisms (SNPs). A total of 20 SNPs were found of which only 20% were in the public dbSNP database. Four SNPs were relatively common in all three ethnic samples. Using these four SNPs, seven distinct haplotypes were statistically inferred, of which four accounted for 75% or more chromosomes. These four haplotypes could be distinguished from each other by the alleles of two SNPs (-1237 and 2848). Five exploratory nested case-control disease-association studies (asthma, DVT, MI, and COPD in European Americans and asthma in African Americans) were performed by genotyping DNA collected from four ongoing cohort studies. There was evidence suggesting increased risk for asthma with a C allele at -1237 (odds ratio 1.85, 95%CI 1.05 to 3.25) among European Americans (genotypes available from 67 cases and 152 controls). No other significant disease associations were detected. Replication of this finding in other, larger samples is needed. This study suggests that there is substantial diversity in human TLR9, possibly associated with asthma in Europeans but not African Americans. No association was detected with three other diseases potentially related to innate immunity.

Black People↗