Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Altered proteome in translationinitiation fidelity defective eIF5G31R mutant causes oxidative stress and DNA damage

ABSTRACT: The recognition of AUG start codon and selection of the open reading frame (ORF) is fundamental to protein biosynthesis. Defect in the start codon selection adversely affectproteome and have a pleiotropic effect on cellular function. Using proteomic techniques, we identified differential protein expression patterns in the translation initiation defectivehyper GTPaseeIF5G31R mutant cells. Consistently, we observed altered proteome involved in protein catabolism, nucleotide metabolism, fatty acid metabolism, glycolysis, and autophagy.The utilization of the upstream UUG codons by the eIF5G31R mutation caused downregulation of uridylate kinase expression and DNA damage. The eIF5G31R mutant cells showed lower Glutathione levels, high ROS activity, and sensitivity to H2O2.

INSTRUMENT(S): 4800 Proteomics Analyzer

ORGANISM(S): Saccharomyces Cerevisiae (baker's Yeast)

SUBMITTER: Pankaj Alone

LAB HEAD: Pankaj V Alone

PROVIDER: PXD029460 | Pride | 2022-05-19

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Publications

Altered proteome in translation initiation fidelity defective eIF5<sup>G31R</sup> mutant causes oxidative stress and DNA damage.

Ram Anup Kumar AK Mallik Monalisha M Reddy R Rajendra RR Suryawanshi Amol Ratnakar AR Alone Pankaj V PV

Scientific reports 20220323 1

The recognition of the AUG start codon and selection of an open reading frame (ORF) is fundamental to protein biosynthesis. Defect in the fidelity of start codon selection adversely affect proteome and have a pleiotropic effect on cellular function. Using proteomic techniques, we identified differential protein abundance in the translation initiation fidelity defective eIF5<sup>G31R</sup> mutant that initiates translation using UUG codon in addition to the AUG start codon. Consistently, the eIF5 ...[more]

PMID: 35322093

Similar Datasets

Post-translational Regulation of FNIP1: a Rheostat for the Molecular Chaperone Hsp90

Project description:The molecular chaperone Hsp90 stabilizes and activates client proteins. Co-chaperones and post-translational modifications tightly regulate Hsp90 function and consequently lead to activation of clients. However, it is unclear whether this process occurs abruptly or gradually in the cellular context. We show that casein kinase-2 phosphorylation of the co-chaperone Folliculin-interacting protein-1 (FNIP1) on priming serine-938 and subsequent relay phosphorylation on serine-939, 941, 946, and 948 promotes its gradual interaction with Hsp90. This leads to incremental inhibition of Hsp90 ATPase activity and gradual activation of both kinase and non-kinase clients. We further demonstrate that serine/threonine protein phosphatase-5 (PP5) dephosphorylates FNIP1, allowing addition of O-GlcNAc (O-linked N-acetylglucosamine) to the priming serine-938. This process antagonizes phosphorylation of FNIP1, preventing its interaction with Hsp90, and consequently promotes FNIP1 lysine-1119 ubiquitination and proteasomal degradation. These findings provide a mechanism for gradual activation of the client proteins through intricate crosstalk of post-translational modifications of the co-chaperone FNIP1.

2019-01-31 | PXD012229 | Pride

Labeo rohita (Rohu) plasma MALDI-TOF MS/MS

Project description:Arsenic (As) is a toxic environmental contaminant and potential human carcinogen. Chronic intake of arsenic-contaminated water leads to arsenicosis that is a major public health problem in many parts of the world, including India and Bangladesh. Thus, the early detection of arsenic toxicity will greatly benefit patients. However, the detection of arsenicosis needs to be done early before onset of severe symptoms in which case the tools used for detection have to be both sensitive and reliable. In this context, the present study investigated plasma proteome changes in arsenic-exposed Labeo rohita, with the aim of identifying biomarkers for arsenicosis. Changes in the plasma proteome were investigated using gel-based proteomics technology. Using quantitative image analysis of the 2D protein profiles, unique protein spots were identified from the plasma proteome by MALDI-TOF-TOF-MS. Unique proteins identified included Apolipoprotein-A1 (Apo-A1), α-2 macroglobulin-like protein (A2ML), and transferrin. Highly up-regulated protein spots identified in plasma from arsenic-exposed fish were liver-specific, including Apo-A1, and A2ML consistent with liver damage. It is proposed that a combination of these proteins could serve as useful biomarkers of hepatotoxicity and chronic liver disease due to arsenic exposure.

2017-05-11 | PXD003404 | Pride

Alkali-salinity NaHCO3-responsive mechanisms in leaves from halophyte Puccinellia tenuiflora revealed from physiological and comparative proteomic analysis

Project description:Alkali-salinity is a major abiotic stress that limits plant growth and productivity. Studying mechanisms of alkali-salinity tolerance in halophytic plants will provide valuable information for underlying plant alkali-salinity tolerance. Puccinellia tenuiflora is considered as an ideal model plant for studying the alkali-salinity tolerant mechanisms in plants. In this study, the NaHCO3-responsive molecular mechanisms in P. tenuiflora leaves were investigated using a combined physiological and proteomic approaches. Our results implied some specific NaHCO3-responsive mechanisms in leaves from P. tenuiflora. They are (1) reduction of photosynthesis attributed to the decrease of the abundance of Calvin cycle enzymes, (2) accumulation of Na+ and K+ caused ion-specific stress, (3) accumulation of proline, soluble sugar and betaine enhanced the ability of osmotic regulation, (4) diverse reactive oxygen species (ROS) scavenging mechanisms under different NaHCO3 concentrations, and (5) alternative protein synthesis and processing strategies in chloroplast and cytoplasm. All these provide important evidence for understanding NaHCO3-responsive mechanisms in P. tenuiflora.

2022-02-23 | PXD002351 | Pride

Comparative Evaluation of Five Protocols for Protein Extraction from Stony Corals (Scleractinia) for Proteomics

Project description:Corals especially the reef-building species are very important to marine ecosystems. Proteomics has been used for researches on coral diseases, bleaching and responses to the environment change. Corals especially the reef-building species are very important to marine ecosystems. Proteomics has been used for researches on coral diseases, bleaching and responses to the environment change. In the present study, five protocols were compared for protein extraction from stony corals.

2022-07-24 | PXD006334 | Pride

An efficient method for protein extraction from low protein concentration solutions compatible with the proteomic analysis of latex-producing organelles

Project description:The extraction of high-purity proteins from the washing solution (WS) of rubber tree latex-producing organelles (also termed rubber particles) in laticifers for proteomic analysis is challenging due to the low concentration of proteins in the WS. Recent studies have revealed that proteins in the WS might play crucial roles in natural rubber biosynthesis. To further examine the involvement of these proteins in natural rubber biosynthesis, we designed an efficiency method to extract high-purity WS proteins. We improved our current borax and phenol-based (BPP) method by adding re-extraction steps with phenol (REP) to improve the yield from low-protein concentration samples. With this new method, we extracted WS proteins that were suitable for proteomics. Indeed, compared to the original BPP method, the REP method improved both the quality and quantity of isolated proteins. By repeatedly extracting from low-protein concentration solutions using the same small amount of phenol, the REP method yielded enough protein of sufficiently high-quality from starting samples containing less than 0.02 mg of proteins per mL. This method was successfully applied to extract the rubber particle proteins from the WS of natural rubber latex samples. The REP-extracted WS proteins were resolved by two-dimensional gel electrophoresis (2-DE), and 28 proteins were positively identified by mass spectrometry. This method has the potential to become widely used for the extraction of proteins from low-protein-concentration solutions for proteomic analysis.

2016-10-10 | PXD004156 | Pride

wheat root MALDI-TOF-MS/MS - Root Proteomics Reveals the Effects of Wood Vinegar on Wheat Growth and Subsequent Tolerance to Drought Stress

Project description:To investigate the proteome pattern of wheat roots following a WV seed presoaking treatment under drought stress, comparative proteomic analysis using two-dimensional polyacrylamide gel electrophoresis was employed for wheat roots. Obtained DEPs were digested with trypsin and subjected to 5800 MALDI-TOF-MS/MS analysis.

2019-11-13 | PXD012150 | Pride

Proteins from formalin-fixed paraffin-embedded prostate cancer sections that predict the risk of metastatic disease

Project description:Purpose: Prostate cancer is the most frequently diagnosed cancer in men and the third leading cause of cancer related deaths among men living in developed countries. Biomarkers that predict disease outcome at the time of initial diagnosis would aid management of the disease. Experimental design: Proteins extracted from formalin-fixed paraffin-embeddded sections were identified either using LC-MALDI MS/MS of tryptic digests or after separation by one- or two-dimensional electrophoresis. A list of potential biomarker candidates, based on proposed associations with prostate cancer, was derived from the 320 identified proteins. Results: Four of the candidates: annexin A2, peroxiredoxin-1, prostate-specific antigen and zinc-alpha-2-glycoprotein, were examined by Western blotting of extracts of biopsies from men whom there was 10-year disease outcome data. Multiplexed Western blotting using cocktails of antibodies and fluor-labeled detection reagents showed that annexin A2 provided the best prediction of risk of metastatic disease. Conclusions and clinical relevance: This pilot study indicates that tumour expression of ANXA2 in diagnostic biopsies of a prostate cancer is predictive for the metastatic potential of that cancer. The potential of protein profiling of each cancer is to lead to an overall reduction in mortality from metastatic prostate cancer as well as reduced treatment associated morbidity.

2015-09-14 | PXD000963 | Pride

Proteome and peptidome of Vipera berus berus venom

Project description:Snake venom is a rich source of peptides and proteins with a wide range of actions. Many of the components of the venom are currently being tested for their usefulness in the treatment of many diseases ranging from neurological and cardiovascular to cancer. It is also important to constantly search for new proteins and peptides with properties not yet described. The venom of Vipera berus berus has hemolytic, proteolytic and cytotoxic properties, but its exact composition and the factors responsible for these properties are not known. Therefore, an attempt was made to identify proteins and peptides derived from this species venom by using high resolution two-dimensional electrophoresis and MALDI ToF/ToF mass spectrometry. A total of 11 protein classes have been identified mainly proteases but also L-amino acid oxidases, C-type lectin like proteins, cysteine-rich venom proteins and phospholipases A2 and 5 peptides of molecular weight less than 1500 Da. Most of the identified proteins are responsible for the highly hemotoxic properties of the venom. Presence of venom phospholipases A2 and L- amino acid oxidases cause moderate neuro-, myo- and cytotoxicity. All successfully identified peptides belong to the bradikinin-potentiating peptides family.

2016-12-12 | PXD004958 | Pride

Identification of full length, splicing and cleavage products of SufB protein of SUF-complex of Mycobacterium tuberculosis

Project description:SufB, an Fe-S cluster assembly protein is critical for mycobacterial survival and virulence; but as a protein still at its nascent stage. SufB is interrupted by an intein sequence, which excises itself out from the full length protein post-translationally. Intein splicing is crucial for the activation of SufB, where intein(I) is excised and final functional product is generated by the ligation of flanking regions, known as Extein or Ligated extein(LE). Functional SufB is coordinating with other Suf proteins of SUF complex to generate Fe-S cluster. These are important for the central metabolism, gene expression, DNA repair etc. During the process of splicing, SufB has a tendency to generate off pathway products as N-cleavage (NC) and N-Extein (NE). In this project we have confirmed the identities of Mycobacterium tuberculosis full length SufB protein (precursor/p), SufB Intein (i), SufB Extein (ligated Extein/le), N-terminal cleavage product (nc) and N-extein (ne) by MALDI TOF/TOF mass spectrometry via gel based proteomics method .

2022-02-15 | PXD015199 | Pride

MALDI-TOF Profiling of modified histone proteins

Project description:Histone lysine methylations as one of the chromatin post-translational modifications, has been linked to the modification of chromatin regions and mediating genome functions.In this study, we investigated the divergent role for histone H4 lysine 20 mono-methylation (H4K20me1) in facilitates chromatin openness and accessibility by disrupting chromatin folding.

2021-08-26 | PXD027150 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data