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ProteomicsA novel domain essential for interdomain cooperativity in binding of a Rep protein to DNA.
A very important feature of replication initiation proteins is the ability to bind to DNA via a characteristic domain. Usually, one or two DNA-binding domains can be distinguished within each initiator. In this work, we specified a new family of replication initiation proteins (the TrfA-like protein...
ORGANISM(S): Escherichia coli 
2021-09-08 | PXD013286 | Pride
Dna replication initiation Trfa Rep proteins Mass spectrometry Dna binding domain Winged helix domain Plasmid rk2 
ProteomicsAnalysis of Erythroleukemia
Samples were subjected to LC–MS analysis using a dual pressure LTQ-Orbitrap Elite mass spectrometer (Thermo Fisher Scientific) connected to an electrospray ion source (Thermo Fisher Scientific) as recently described (PMID: 23017020). Peptide separation was carried out on an EASY nLC-1000 system (The...
ORGANISM(S): Homo sapiens (Human) 
2022-02-24 | PXD012490 | Pride
Erythroleukemia Mass spectroemtry 
ProteomicsThe footprint of embryonic genome activation on the proteome of mouse preimplantation development
The transformation of a fertilized oocyte into a multicellular embryo comprised of differentiated cells depends on the processing of genetic orders, first in the form of transcripts and then of proteins. Our current understanding of mouse development has greatly benefited from the analysis of transc...
ORGANISM(S): Mus musculus (Mouse) 
2019-10-23 | PXD007082 | Pride
Lc-msms Mouse development Silac Preimplantation Oocyte 
ProteomicsData in support of administration of a soluble TNF inhibitor that reduces infarct volume after focal cerebral ischemia in mice
Background: Tumor necrosis factor, which exists both as a soluble (solTNF) and a transmembrane (tmTNF) protein, plays an important role in post-stroke inflammation. The objective of the present study was to test the effect of topical versus intracerebroventricular administration of XPro1595 (a solTN...
ORGANISM(S): Mus musculus (Mouse) 
2019-11-12 | PXD014440 | Pride
Microglial activation Cytokines Neuroprotection Ischemic stroke Behavior 
ProteomicsA balanced Oct4 protein interaction network is crucial for maintaining pluripotency
Oct4 is considered a master transcription factor for pluripotent cell self-renewal and embryo development. It primarily collaborates with other transcriptional factors or coregulators to maintain pluripotency. However, it is still unclear how Oct4 interacts with its partners. Here, we show that the ...
ORGANISM(S): Mus musculus (Mouse) 
2021-12-10 | PXD017456 | Pride
Oct4 Embryonal development Proteomics Pluripotency Mass spectrometry Transcription factor Pou5f1 Stem cells Protein-protein interaction 
ProteomicsDIA-enabled discovery of alternative proteins (AltProts) in mouse heart development
In this project, we conducted an evaluation of mass spectrometry methods using mouse heart and HCT116 cell samples. The results demonstrated that the data-independent acquisition (DIA) approach outperformed data-dependent acquisition (DDA) in the identification of Altprot and canonical proteins. Sub...
ORGANISM(S): Mus musculus (Mouse) 
2025-01-17 | PXD045956 | Pride
Altorfs  mouse heart development  mass spectroemtry 
ProteomicsStatistical crystallography reveals an allosteric network in SARS-CoV-2 Mpro
To interpret and transmit biological signals, proteins use correlated motions. Experimental determination of these dynamics and the structural distributions they generate remains a key challenge. Here, using 1146 crystal structures of the main protease (Mpro) from SARS-CoV-2, we were able to infer a...
ORGANISM(S): Escherichia coli 
2026-04-14 | PXD076496 | Pride
Enzymology Sars-cov-2 Crystallography 
ProteomicsGenome-wide identification of Dickeya solani genes regulated in response to potato (Solanum tuberosum L.) and bittersweet nightshade (Solanum dulcamara L.) tissues
The purpose of this study was to identify and characterize the D. solani genes that are differentially expressed in the early stages of infection of S. tuberosum (model for primary crop host) and S. dulcamara (model plant for alternative non-crop host) by a process of a random mutagenesis of D. sola...
ORGANISM(S): Solanum tuberosum (Potato) 
2021-09-09 | PXD017118 | Pride
Ms/ms Protein id Plant extract Fasp 
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