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77 results for “transport proteins”
Blobs form during the single-file transport of proteins across nanopores
<p>Electrophysiology data corresponding to the main text figures and supporting information figures. One representative set was chosen for each triplicate and included in this data set. Data was categorised based on the nanopore that was used.</p>
FIGURE 3 in A study of the SNARE protein syntaxin 16 and its role in the intracellular trafficking of glucose transporter GLUT4 in 3T3-L1 adipocytes
FIGURE 3. Scanning electron micrographic images of dorsal sides of (a) male and (b) female Aetacarus elanoides sp.n. Scales = 100 µm.
FIGURE 2 in A study of the SNARE protein syntaxin 16 and its role in the intracellular trafficking of glucose transporter GLUT4 in 3T3-L1 adipocytes
FIGURE 2. Aetacarus elanoides sp. n., female. a – dorsal view, b – genital area; gl = gland opening, gp = genital papilla, ia = cupule.
Global effects of deletions of the sitABCD, mntH, cbiMNQO and corA genes, encoding transporters for manganese, cobalt and magnesium on protein abundance in Salmonella enterica serovar Typhimurium grown to stationary phase in LB.
<p>The RpoS/σS sigma subunit of RNA polymerase is the master regulator of the general stress response in many Gram-negative bacteria.</p><p>We have shown that in <i>Salmonella enterica </i>serovar Typhimurium, RpoS activates transcription of the <i>sitABCD</i> and <i>mntH </i> genes, involved in iron and manganese transport, and that of <i>corA</i> encoding the main magnesium transporter (Levi-Meyrueis <i>et al</i>. 2014, Metaane <i>et al</i>. 2022, Metaane <i>et al. </i>2023). In addition, RpoS represses expression of the CbiO protein produced from the <i>cbiMNQO</i> operon encoding a high affinity cobalt uptake system (Lago <i>et al.</i> 2017, Metaane <i>et al</i>. 2022, Metaane <i>et al. </i>2023). Moreover, Inductively coupled plasma mass spectrometry analyses have revealed that the Δ<i>rpoS</i> mutation reduces the cellular concentration of manganese and magnesium and increases the concentration of cobalt of stationary phase <i>Salmonella </i>(Metaane <i>et al. </i>2022). These findings suggested that a tight control of uptake and availability of manganese, magnesium and cobalt might be critical for quiescent bacteria. Consistent with this hypothesis, our recent findings unraveled the importance of RpoS and magnesium in the regrowth potential of quiescent <i>Salmonella</i> cells (Metaane <i>et al</i>. 2022).</p><p>Unexpectedly, our recent work revealed that, under magnesium proficient environmental conditions, the absence of the housekeeping Mg2+ transporter CorA is sensed by the cell which induces compensatory mechanisms to minimize the impact of a Δ<i>corA</i> mutation on protein content, magnesium homeostasis, growth, and motility of <i>Salmonella </i>(Metaane <i>et al. </i>2023). In this study, we used a mass spectrometry-based proteomics approach to address the physiological impact of the SitABCD, MntH and CbiMNQO transporters on quiescent <i>Salmonella. </i>A comprehensive quantitative proteomic analysis was performed using wild-type and Δ<i>rpoS </i>strains of <i>Salmonella</i> ATCC14028 carrying deletions of these genes and grown to late stationary phase in nutrient-rich LB medium, <i>i.e</i>. the growth conditions previously used to characterize the RpoS- transcriptome, proteome and ionome (Levi-Meyrueis <i>et al.</i> 2014, Lago <i>et al. </i>2017, Metaane <i>et al. </i>2022). Since CorA can also import cobalt, a Δ<i>corA</i> mutation was included and combined with the Δ<i>cbiMNQO</i> mutation. </p><p><strong>Accession number</strong>.The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium via the PRIDE partner repository with the dataset identifier <strong>PXD043760</strong>.</p><p><strong>This work was supported by the French National Research Agency (ANR-19-CE44-0005-01, PERIOMET project).</strong></p><p><strong>References</strong></p><p>Levi-Meyrueis C, Monteil V, Sismeiro O, Dillies MA, Monot M, Jagla B, Coppée J-Y, Dupuy B, Norel F. Expanding the RpoS/sigmaS-network by RNA sequencing and identification of sigmaS-controlled small RNAs in <i>Salmonella</i>. PloS one. 2014;9(5):e96918.</p><p>Lago M, Monteil V, Douche T, Guglielmini J, Criscuolo A, Maufrais C, Matondo M, Norel F. Proteome remodelling by the stress sigma factor RpoS/sigma(S) in <i>Salmonella</i>: identification of small proteins and evidence for post-transcriptional regulation. Scientific reports. 2017;7(1):2127.</p><p>Metaane S, Monteil V, Ayrault S, Bordier L, Levi-Meyreuis C, Norel F. The stress sigma factor sigmaS/RpoS counteracts Fur repression of genes involved in iron and manganese metabolism and modulates the ionome of <i>Salmonella enterica </i>serovar Typhimurium. PLoS one. 2022;17(3):e0265511.</p><p>Metaane S, Monteil V, Douché T, Giai Gianetto Q, Matondo M, Maufrais C, Norel F. Loss of CorA, the primary magnesium transporter of <i>Salmonella, </i>is alleviated by MgtA and PhoP-dependent compensatory mechanisms. PloS one 2023;18(9):e0291736.</p><p>NOREL, & MONTEIL. (2023). Ionome analysis of Salmonella mutants by Inductively coupled plasma mass spectrometry (ICP-MS) (Version v1) [Data set]. Zenodo. https://doi.org/10.5281/zenodo.8085835</p><p> </p><p> </p>
Fig. 4. 109 in ABCG transporter proteins with beneficial activity on plants
Fig. 4. 109Cd radioactivity in shoots and roots of Arabidopsis plants measured using liquid scintillation counter (Kim et al., 2007).
Fig. 1 in ABCG transporter proteins with beneficial activity on plants
Fig. 1. Kanamycin resistance in T1 transgenic seeds with pABC. (a) Segregation of T1 seeds when plated on 200 mg/l of kanamycin containing medium. (b) Northern blot analysis shows expression of AtABCG19 gene (Mentewab and Stewart 2005).
Fig. 3 in ABCG transporter proteins with beneficial activity on plants
Fig. 3. Arabidopsis plants grown in medium containing different concentrations of Cd and Pb. (a) Decrease in growth of plants with AtPDR8-RNAi (8i-2) and AtPDR8 knockout plants(ko-1), whereas normal growth occurs in wild-type plants(WT) in media containing different concentrations of CdCl2. (b) Decreased resistance to Pb in Arabidopsis plants with 8i-2 and knockout of AtPDR8 (ko-2) when grown in Pb(NO3)2 containing medium (Kim et al., 2007).
Fig. 6 in ABCG transporter proteins with beneficial activity on plants
Fig. 6. Mutants of AtABCG26 with loss of function (abcg26-1) show less amount of self-pollination due to impaired sporopollenin formation whereas wild type plants with normal AtABCG26 perform usual self-pollination (Choi et al., 2011).
Fig. 2 in ABCG transporter proteins with beneficial activity on plants
Fig. 2. Transport of Abscisic acid (ABA) during water stress in plant mediated by AtABCG25 and AtABCG40 (Kang et al., 2011).
Fig. 5 in ABCG transporter proteins with beneficial activity on plants
Fig. 5. ABCG transporters that play important role in cuticle development by transporting cuticular wax/cutin (Kang et al., 2011).
Drug-drug Interaction Study Using Rosuvastatin as a Breast Cancer Resistant Protein (Efflux Transporter), Organic Anion-transporting Polypeptide (OATP)1B1, and OATP1B3 (Uptake Transporters) Probe Subs
ClinicalTrials.gov study NCT02671097. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Data from: Selective clearance of the inner nuclear membrane protein emerin by vesicular transport during ER stress
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Water will find its way: transport through narrow tunnels in hydrolases (E470G protein)
<p><strong>Water will find its way: transport through narrow tunnels in hydrolases (E470G protein)</strong></p> <p>The input files and results used for the paper "<em>Water will find its way: transport through narrow tunnels in hydrolases</em>" are separated in the different files depending the stage they belong to.</p> <ol> <li><strong>01_Simulations.tar.gz:</strong> All the files used to get the data employing Molecular Dynamics simulations.</li> <li><strong>02_Caver.tar.gz:</strong> Caver config used together with the "<em>Divide-and-conquer approach to study protein tunnels in long molecular dynamics simulations"</em> method (https://doi.org/10.1016/j.mex.2022.101968), and after re-clustering as described in the methods section of the paper.</li> <li><strong>03_Aquaduct.tar.gz:</strong> Aquaduct results for all the MD trajectories.</li> <li><strong>04_TransportTools.tar.gz:</strong> We employed the comparative approach to analyze the results with TransportTools (https://doi.org/10.1093/bioinformatics/btab872). Please see the README file inside for more explanations. Results can be found at Zenodo repository https://doi.org/10.5281/zenodo.7965661</li> <li><strong>05_WaterAnalysis.tar.gz:</strong> The results from the exact matching analysis were parsed to perform H-bond analysis. Here are the PDBs where the *minimum sphere event* is present. Also the txt files with the results from the H-bond analysis are here.</li> </ol> <p><strong>Files</strong></p> <ol> <li><strong>01_build_database.py</strong> Python3 script to parse the results from the exact matching analysis from TransportTools into a dictionary of transport events. For more detailed information read the script documentation.</li> <li><strong>hEpx_E470G.dat</strong> Parsed database of transport events for hEpx_E470G system.</li> </ol>
Water will find its way: transport through narrow tunnels in hydrolases (Hal protein)
<p><strong>Water will find its way: transport through narrow tunnels in hydrolases (Hal protein)</strong></p> <p><br>The input files and results used for the paper “<em>Water will find its way: transport through narrow tunnels in hydrolases</em>” are separated in the different folders depending the stage they belong to.</p> <ol> <li><strong>01_Simulations.tar.gz:</strong> All the files used to get the data employing Molecular Dynamics simulations.</li> <li><strong>02_Caver.tar.gz:</strong> Caver config used together with the Divide-and-conquer approach to study protein tunnels in long molecular dynamics simulations method (https://doi.org/10.1016/j.mex.2022.101968), and after re-clustering as described in the methods section of the paper.</li> <li><strong>03_Aquaduct.tar.gz:</strong> Aquaduct results for all the MD trajectories.</li> <li><strong>04_TransportTools.tar.gz:</strong> TransportTools results (https://doi.org/10.1093/bioinformatics/btab872).</li> <li><strong>05_WaterAnalysis.tar.gz:</strong> The results from the exact matching analysis were parsed to perform H-bond analysis. Here are the PDBs where the minimum sphere event is present. Also the txt files with the results from the H-bond and contact analyses are here.</li> </ol> <p><strong>Files</strong></p> <ol> <li><strong>01_build_database.py</strong> Python3 script to parse the results from the exact matching analysis from TransportTools into a dictionary of transport events. For more detailed information read the script documentation.</li> <li><strong>Hal.dat</strong> Parsed database of transport events for Hal system. Command used: <em>python3 01_build_database.py -c 04_TransportTools/Hal_tt.ini -o Hal.dat</em></li> </ol>
Modulation of Multidrug Resistance Protein 1-mediated transport processes by the antiretroviral drug ritonavir
<p>We here provide the structure files, trajectories and topology files for analyzing and reproducing simulations performed in the publication: "<strong>Modulation of Multidrug Resistance Protein 1-mediated transport processes by the antiretroviral drug ritonavir</strong>".</p> <p>Classical molecular dynamics simulation of rat Mrp1 have been performed in complex with native substrates like GSH and GSSG or drug molecules like ritonavir, to study binding modes of different combinations. </p> <p>Structure and trajectory files (all 1 µs long) as well as recorded movies of the time progression are provided for the following simulation systems:</p> <p>1. GSH bound to rat Mrp1</p> <p>2. GSSG bound to rat Mrp1</p> <p>3. Ritonavir bound to rat Mrp1</p> <p>4. GSH + Ritonavir bound to rat Mrp1</p> <p>5. GSSG + Ritonavir bound to rat Mrp1</p> <p>Additionally itp files (GROMACS format) containing parameter information about the ligands GSH, GSSG and Ritonavir are provided for the force field CHARMM36m. </p> <p>Raw data of the homology modeling of rat Mrp1 by I-Tasser as well as Docking results produced via AutoDock4 are uploaded as zip directories. </p> <p> </p>
Evaluating the Transporter Protein Inhibitor Probenecid In Patients With Epilepsy
ClinicalTrials.gov study NCT00610532. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Effects of Aceis on Peritoneal Protein Loss and Solute Transport in pd Patients
ClinicalTrials.gov study NCT01575652. IPD Sharing: Not stated. Countries: 0. Publications: 3.
Data from: Prion protein inhibits fast axonal transport through a mechanism involving casein kinase 2
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A multi-omics dataset of heat-shock response in the yeast RNA transport protein Mip6
GEO Series GSE135568. Saccharomyces cerevisiae. 67 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
The role of SWEET4 proteins in the post-phloem sugar transport pathway of Setaria viridis sink tissues
GEO Series GSE131540. Setaria viridis. 32 samples. Type: Expression profiling by high throughput sequencing.
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