Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Ant-oxidative effect of Lingzhi Protein Hydrolysate on Lipopolysaccharide-Stimulated A549 Cells

ABSTRACT: The oxidation stress suppression of enzymatic digestion reactions from Linzhi on LPS-stimulated A549 was not reported yet. In addition, the molecular mechanisms which directly related to physiological actions in our body is largely unknown. So, explorer the molecular mechanism of the protein hydrolysate in the reduction of oxidative stress on human cell line may lead more widespread realized in Lingzhi as valuable raw material for functional food additive

INSTRUMENT(S): impact II, Synapt MS

ORGANISM(S): Ganoderma Lingzhi Homo Sapiens (human)

TISSUE(S): Fruit Body, Lung, Epithelial Cell, Vegetative Cell (sensu Fungi)

DISEASE(S): Lung Adenoma

SUBMITTER: Sucheewin Krobthong

LAB HEAD: Sucheewin Krobthong

PROVIDER: PXD016946 | Pride | 2021-04-29

REPOSITORIES: pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	A549_pre_lps01.raw.zip	Raw
	A549_pre_lps02.raw.zip	Raw
	A549_pre_lps03.raw.zip	Raw
	A549_pre_lps04.raw.zip	Raw
	A549_pre_mush01.raw.zip	Raw

Items per page:

1 - 5 of 9

Similar Datasets

Ant LC-MSMS

Project description:Animal longevity widely differs across species, and even individuals from the same species may exhibit different rates of ageing. In different species, the rate at which individuals actually age is related to the level of their social interactions, but this was still not known in ants. In a given colony, ant individuals are close genetic relatives, exhibit very different behaviours and a contrasted lifespan according to the Caste. Such characteristics constitute main advantages to study relationships between sociality and ageing. Therefore, the aim of this study was to characterize differences in the proteome of Lasius niger queens versus that of domestic and foraging workers. Proteomic data were put in relation with the behaviour of individuals from the three Castes. Hence, it was found that sociality correlates with ant longevity, with i) social immunity enabling the queen to mainly invest in soma protection, and ii) marked exposition of workers to the environment and nutrients inducing metabolic pathways that reduce their lifespan.

2020-08-03 | PXD006779 | Pride

c-di-GMP-induced conformational dynamics of the c-di-GMP-binding protein A (CdbA) from Myxococcus xanthus

Project description:The second messenger c-di-GMP has important functions in response to changing environmental and cellular cues in bacteria. Here, we report the identification of CdbA, a DNA binding protein of the ribbon-helix-helix family in Myxococcus xanthus, and show that it binds c-di-GMP in vitro. CdbA is essential for viability and its depletion caused defects in chromosome organization and segregation resulting in a block in cell division. CdbA binds multiple sites across the M. xanthus genome with moderate sequence specificity; however, its depletion only caused minor changes in transcription. C-di-GMP binding and DNA binding by CdbA are mutually exclusive and substitutions in the CdbA interfaces important for c-di-GMP binding not only abolished c-di-GMP binding but also DNA binding and rendered the mutant proteins non-functional in vivo. Our data are consistent with a model whereby CdbA functions as a nucleoid associated protein to organize the M. xanthus chromosome and the function of CdbA is modulated by c-di-GMP, thus, for the first time, establishing a link between c-di-GMP and chromosome organization and segregation.

2020-04-16 | PXD018028 | Pride

Project description:Photobiofilm explorer

| PRJNA1098477 | ENA

Structural dynamics of the chicken TRPV4 N-terminal domain

Project description:Intrinsically disordered regions (IDRs) are essential for membrane receptor regulation but often remain unresolved in structural studies. TRPV4, a member of the TRP vanilloid channel family involved in thermo- and osmosensation, has a large N-terminal IDR of approximately 150 amino acids. With an integrated structural biology approach, we analyze the structural ensemble of the TRPV4 IDR and identify a network of regulatory elements that modulate channel activity in a hierarchical lipid-dependent manner through transient long-range interactions. A highly conserved autoinhibitory patch acts as a master regulator by competing with PIP2 binding to attenuate channel activity. Molecular dynamics simulations show that loss of the interaction between PIP2-binding site and the membrane reduces the force exerted by the IDR on the structured core of TRPV4. This work demonstrates that IDR structural dynamics are coupled to TRPV4 activity and highlights the importance of IDRs for TRP channel function and regulation.

2023-10-24 | PXD041067 | Pride

Pseudomonas aeruginosa cystic fibrosis strains share a core proteome

Project description:The opportunistic pathogen Pseudomonas aeruginosa is among the main colonizers of the lungs of cystic fibrosis (CF) patients. We have isolated and sequenced several P. aeruginosa isolates from the sputum of CF patients and used phenotypic, genomic and proteomic analyses to compare these CF derived strains with each other and with the model strain PAO1.

2015-10-14 | PXD002865 | Pride

SWATH-MS in quality control of biologicals: Towards confident label-free and non-targeted quantification with single injection? - An illustration with plasma residuals profiling in human immunoglobulin.

Project description:By performing data-independent acquisition (DIA), SWATH-MS is expected to provide comprehensive and repeatable spectral data that can be perpetually interrogated by reference spectral libraries. In the context of biological sample quality control, a benchmark spectral library could index all the possible low-abundant contaminants that should be screened in the sample. Here, the case study concerns the profiling of plasma residuals in human immunoglobulin (Ig) preparations. Yet with such an application, a strong repeatability issue in protein quantification calls for a MS2-level data quality criterion. A MS device intrinsic relationship between MS2 quantification CV and peak area allows using peak area range instead of CV threshold as such a criterion, and by this flagging confident data from single injections. A Python script is provided to perform this flagging. Using such flagging becomes increasingly important as the library becomes more distant from the actual sample. Using appropriated sample fractionation, Ig residuals profiles based on flagged MS2-level quantifications are remarkably consistent with MS1-level quantifications based on classical shotgun (DDA) approach. Sensitivity, which is around three to four orders of magnitude in the concentration dynamic range with a TripleTOF5600 device, remains the main pitfall to gain confident quantification of proteins which were not identified with DDA in the sample and to fully benefit from the SWATH potential for QC applications: provide MS2 specific, comprehensive, label-free and non-targeted quantitative profiles with single injections.

2022-10-04 | PXD007656 | Pride

MASH Explorer: A Universal Software Environment for Top-Down Proteomics

Project description:MASH Explorer, a universal, comprehensive, and user-friendly software environment for top-down proteomics. MASH Explorer integrates multiple spectral deconvolution and database searching algorithms into a single, universal platform which can process top-down proteomics data from various vendor formats, for the first time. It addresses the urgent need in the rapidly growing top-down proteomics community and is freely available to all users worldwide. With the critical need and tremendous support from the community, we envision this MASH Explorer software package will play an integral role in advancing top-down proteomics to realize its full potential for biomedical research.

2021-09-09 | PXD020615 | Pride

Structural mechanisms of autoinhibition and substrate recognition by the ubiquitin ligase HACE1

Project description:Ubiquitin ligases (E3s) are pivotal specificity determinants in the ubiquitin system by selecting substrates and decorating them with distinct ubiquitin signals. Structure determination of the underlying, specific E3-substrate complexes, however, has proven challenging due to their transient nature. In particular, it is incompletely understood how members of the catalytic cysteine-driven class of HECT-type ligases position substrate proteins for modification. Here we report a cryo-EM structure of the full-length human HECT-type ligase HACE1, along with solution-based conformational analyses by small-angle X-ray scattering and hydrogen-deuterium exchange mass spectrometry. Structure-based functional analyses in vitro and in cells reveal that the activity of HACE1 is stringently regulated by dimerization-induced autoinhibition. The inhibition occurs at the first step of the catalytic cycle and is thus substrate-independent. We employ mechanism-based chemical crosslinking to reconstitute a complex of activated, monomeric HACE1 with its major substrate, RAC1, visualize its structure by cryo-EM, and validate the binding mode by solution-based analyses. Our findings explain how HACE1 achieves selectivity in ubiquitinating the active, GTP-loaded state of RAC1 and establish a framework for interpreting mutational alterations of the HACE1-RAC1 interplay in disease. More broadly, this work illuminates central unexplored aspects in the architecture, conformational dynamics, regulation, and specificity of full-length HECT-type ligases.

2024-02-12 | PXD045837 | Pride

SWATH-MS based protein quantification for diagnosis in systemic lupus erythematous

Project description:The gold standard for diagnosing lupus nephritis, one of the common symptoms of systemic lupus erythematosus, is an invasive procedure, a Renal biopsy. To overcome the risk of invasive methods, we constructed a spectral library using biological samples that can be obtained non-invasively and analyzed it using the SWATH-MS method, a quantitative proteomic analysis.

2023-10-24 | PXD040099 | Pride

Utility of Intra-operative Image Guidance System for Missing Metastases

Project description:Intraoperatively, the surgeon will interrogate the liver with ultrasound. The time spent by the surgeon using the ultrasound is recorded. If all lesions seen on pre-op imaging were found, the patient does not have the Pathfinder Explorer system applied. If one or more lesions cannot be found, then the Pathfinder Explorer system is calibrated and a tracking device is attached to the ultrasound probe, which the surgeon will use to reattempt localization of the missing tumor. The Pathfinder Explorer system operates in real-time in conjunction with the ultrasound.

| 2217739 | ecrin-mdr-crc