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ProteomicsCharacterizations of HSP90-interacting complex in renal cells using tandem affinity purification and its potential role in kidney stone formation
Heat shock protein 90 (HSP90) is a highly abundant molecular chaperone that interacts with many other intracellular proteins to regulate various cellular processes. However, compositions of the HSP90-interacting complex remain underinvestigated. This study thus aimed to characterize such complex in ...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2018-12-17 | MSV000083252 | MassIVE
ProteomicsLight-controlled affinity purification of protein complexes
Methods to affinity purify proteins are widely used in protein research. One important application is to identify interacting proteins of an affinity-purified protein of interest (POI) by mass spectrometry. Here, we developed an optogenetics-derived and light-controlled affinity purification method ...
ORGANISM(S): Homo sapiens (Human) 
2019-03-18 | PXD012156 | Pride
Affinity purification Mass spectrometry Optogenetics Protein-protein interaction Phytochrome Zap70 
ProteomicsxIP-MS: topological analysis of chromatin-associated protein complexes using single affinity purification
In recent years, cross-linking mass spectrometry (XL-MS) has proven to be a robust and effective method of interrogating macromolecular protein complex topologies at peptide resolution. Traditionally, XL-MS workflows have utilized homogenous complexes obtained through time-limiting reconstitution, t...
ORGANISM(S): Homo sapiens (Human) 
2015-11-17 | PXD002987 | Pride
Affinity purification Chemical cross-linking mass-spectrometry Chromatin 
ProteomicsIdentification of Mitogen-Activated Protein Kinase Phosphatase-1 (MKP-1) protein partners using Tandem Affinity Purification and Mass Spectrometry
According to the World Health Organization Report, depressive disorders affect about 10% of the population. The molecular mechanism of the pathogenesis of depression is still not well understood. The new findings point to phosphatases as potential targets for effective depression therapy. The aim of...
ORGANISM(S): Rattus Norvegicus (ncbitaxon:10116) 
2023-01-19 | MSV000091093 | MassIVE
ProteomicsHighly accurate protein complex retrieval by affinity enrichment MS rather than affinity purification MS
Protein-protein interactions are fundamental to the understanding of biological processes. Affinity purification coupled to mass spectrometry (AP-MS) is one of the most promising methods for their investigation. Previously, complexes were purified as much as possible, frequently followed by identifi...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2015-03-26 | PXD000955 | Pride
Ap-ms Ae-ms Yeast Interaction proteomics Label-free quantification 
ProteomicsAPPLE-MS: A modular affinity purification-mass spectrometry method assisted by PafA- mediated proximity labeling
While affinity purification-mass spectrometry (AP-MS) has significantly advanced protein-protein interaction (PPI) studies, its limitations in detecting weak, transient, and membrane-associated interactions remain. To address these challenges, we introduced an innovative proteomic method termed Affi...
ORGANISM(S): Homo sapiens (Human) Rattus norvegicus (Rat) 
2025-10-27 | PXD063145 | Pride
Ap-ms Proximity labeling Protein-protein interaction Interactome 
ProteomicsIdentifying the interacting proteins of lignin biosynthetic P450 enzymes by affinity purification coupled with LC-MS/MS analysis
This project aims to identify the potential interacting proteins of lignin biosynthetic P450 enzymes by affinity purification and LC-MS/MS analysis. To this end, the genomic pieces of three lignin biosynthetic P450 genes C4H, C3’H and F5H were cloned into pMDCpC4H-HPB vector to generate HPB-fusion c...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2018-05-02 | PXD009033 | Pride
Lignin C3'h Affinity purification F5h C4h Lc-ms/ms 
ProteomicsIdentification of inositol 1,4,5-trisphosphate-binding proteins by heparin-agarose affinity purification and LTQ ORBITRAP MS in Oryza sativa
Inositol 1,4,5-trisphosohate (IP3) and its receptors play a pivotal role in calcium signal transduction in mammals. Some fractions of tonoplast and endoplasmic reticulum membranes have high affinity binding activity for IP3, and IP3 can induce Ca2+ release in several plants. However, no homologues o...
ORGANISM(S): Oryza sativa (Rice) 
2014-09-25 | PXD000763 | Pride
Oryza sativa Ip3 Ip3 binding protein Ltq orbitrap ms Heparin-agarose 
ProteomicsDifferential centrifugation coupled to affinity purification-mass spectrometry of mcherry-ATG8E
Autophagosomes are double-membraned vesicles that traffic harmful or unwanted cellular macromolecules to the vacuole for recycling. Although autophagosome biogenesis has been studied extensively, autophagosome maturation, i.e., delivery and fusion with the vacuole, remains largely unknown in plants....
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2022-10-18 | PXD031787 | Pride
Arabidopsis Lc-msms Autophagosomes Affinity purification 
ProteomicsTAZ (WWTR1) Interactome Analysis using a GBP nanotrap based affinity purification approach
The transcriptional co-activator TAZ (WWTR1) plays a crucial role in regulating gene expression related to cell proliferation, differentiation, and tissue homeostasis, particularly within the Hippo signaling pathway. Since TAZ does not directly bind to DNA, it largely relies on its protein-protein i...
ORGANISM(S): Mus musculus (Mouse) Rattus norvegicus (Rat) 
2025-02-11 | PXD060532 | Pride
Mass spectrometry Affinity-purification Skeletal muscle Taz Nanobody 
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