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ProteomicsCross-linking mass spectrometry of purified human endosomes (DHSO, DMTMM)
EndoMAP aims to systematically dissect the human endosomal protein complexes. DHSO/DMTMM cross-linking experiment was performed on freshly prepared endosomal pellets from HEK293 cells to capture protein interactions and structures in purified organelles.
ORGANISM(S): Homo sapiens (Human) 
2025-03-29 | PXD059547 | Pride
Dhso Cross-linking Human Dmtmm Endosomes Endomap 
ProteomicsComplete structures of the YenTc holotoxin prepore and pore reveal the evolutionary basis for chitinase incorporation into ABC toxins
ABC toxins are toxin-translocating, pore-forming proteins found in a wide range of insecticidal bacteria and some mammalian pathogens. The Yersinia entomopahaga toxin complex (YenTc) belongs to a distinct subclass of ABC toxins, defined by a divergent molecular architecture. Structural details that ...
ORGANISM(S): Yersinia entomophaga 
2025-12-22 | PXD068275 | Pride
Yentc Xlms Pores Abc toxins Alphafold Cryoem 
ProteomicsIntegrative Structural Characterization of the Human Canonical and Non-canonical Cop9 Signalosome Complexes
The COP9 signalosome (CSN) is an evolutionarily conserved protein complex that functions as a deneddylase to inactivate Cullin-RING E3 ligases for controlling protein ubiquitination. CSN possesses structural flexibility that is important for its activation upon binding to a diverse array of CRLs. Th...
ORGANISM(S): Homo sapiens (Human) 
2020-02-04 | PXD014673 | Pride
Mass spectrometry Sulfoxided based cross-linkers Cross-linking Intergrative modeling platform (imp) Ms-cleavable Cop9 signalosme 
UnknownDeveloping an Acidic Residue Reactive and Sulfoxide-Containing MS-Cleavable Homobifunctional Cross-Linker for Probing Protein-Protein Interactions.
Not available
S-EPMC4989248 | biostudies-literature
ProteomicsMimicked synthetic ribosomal protein complex for benchmarking cross-linking mass spectrometry workflows
The field of cross-linking mass spectrometry has matured to a frequently used tool for the investiga-tion of protein structures as well as interactome studies up to a system wide level. The growing com-munity generated a broad spectrum of applications, linker types, acquisition strategies and specia...
ORGANISM(S): Escherichia coli 
2022-05-24 | PXD029252 | Pride
Mass spectrometry Ribosome Fdr Crosslinking 
ProteomicsElucidating PTEN Conformational Dynamics and Phosphatase Regulation via Integrative Modeling and Mutation Prediction
PTEN (Phosphatase and TENsin homolog deleted on chromosome ten) is a major tumor suppressor gene that is frequently mutated or lost under cancerous conditions. PTEN is a dual-specificity phosphatase that negatively regulates the PI3K/AKT/mTOR signaling pathway at the plasma membrane (PM). Its functi...
ORGANISM(S): Homo sapiens (Human) 
2025-06-09 | PXD059974 | Pride
Molecular dynamics Molecular modeling Molecular biology Conformational change Rasp stability prediction Crosslinking mass spectrometry (xl-ms) Alphamissense Clinical mutation Integrative structural modeling Phosphatase and tensin homolog (pten) 
ProteomicsElucidating PTEN Conformational Dynamics and Phosphatase Regulation via Integrative Modeling and Mutation Prediction
PTEN-WT and PTEN-4A models generation using Rosetta restrained with XL-MS crosslink distance restraints. Two major conformations of each protein were modeled
ORGANISM(S): Homo sapiens (Human) 
2025-06-09 | PXD060469 | Pride
Molecular dynamics Molecular modeling Molecular biology Conformational change Rasp stability prediction Crosslinking mass spectrometry (xl-ms) Alphamissense Clinical mutation Integrative structural modeling Phosphatase and tensin homolog (pten) 
ProteomicsUtilising crosslinking MS to explore protein structure and interactions
In this study, we performed proteome-wide crosslinking mass spectrometry (XLMS) on human HEK293 intact organelles and examined the combined utility of these crosslinks with AlphaFold.
ORGANISM(S): Homo sapiens (Human) 
2023-04-24 | PXD035844 | Pride
Xlms Crosslinking ms Alphafold Crosslinking 
ProteomicsStructure of the Plant Plastid-Encoded RNA Polymerase
In this study, the native Sinapis alba plastid-encoded RNA polymerase (PEP) complex was purified and cross-linking MS was used to help in its structure determination.
ORGANISM(S): Sinapis alba 
2024-03-01 | PXD045575 | Pride
Cross-linking Xlms Pep Polymerase Native protein purification 
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