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ProteomicsCharacterizing the dynamic oligomerization of Hsp90β using photo-cross-linking
Cross-linking mass spectrometry (XL-MS) is a powerful tool for probing protein structures. While conventional chemical cross-linkers react with specific residues with defined chemistry, photo-cross-linkers, despite their superior reactivity, have been hindered by incomplete mechanistic understanding...
ORGANISM(S): Homo sapiens (Human) 
2026-04-09 | PXD072009 | Pride
Hsp90 Cleavable cross-linkers Diazirine Photo-cross-linking 
ProteomicspLink Characterizing the dynamic oligomerization of HSP90β using photo-cross-linking
Cross-linking mass spectrometry (XL-MS) is a transformative tool for probing protein structures. While conventional chemical crosslinkers exhibit well-defined chemistry for specific residues, photo-crosslinkers, despite their superior reactivity, have been hindered by incomplete mechanistic understa...
ORGANISM(S): Homo sapiens (Human) 
2026-04-09 | PXD066889 | Pride
Cleavable cross-linkers Diazirine Photo-cross-linking Machine learning (decision tree) Hsp90β 
ProteomicsStructural requirements for photo-induced RNA-protein cross-linking
Cross-linking of isotope-labelled RNA coupled with mass spectrometry (CLIR-MS) was used to study the UV cross-linking behavior of in vitro reconstituted FOX1 RRM in complex with its cognate RNA sequence, the Fox binding element (FBE), (U)GCAUGU. The FBE heptanucleotide was subsequently mutated, and ...
ORGANISM(S): Homo sapiens (Human) 
2022-06-09 | PXD031381 | Pride
Uv cross-linking  mbnl1  fox1  ptbp1  sf3a1  u1  u2  cross-linking  xl-ms  structural proteomics  protein-rna  rna-protein  protein-rna complex  rna-protein complex  clir-ms 
ProteomicsCombining Affinity Enrichment, Cross-Linking with Photo-Amino Acids, and Mass Spectrometry for Probing Protein Kinase D2 Interactions
We present an approach that relies on the affinity enrichment of a target protein from a complex mixture, followed by a UV-induced activation of incorporated diazirine photo-reactive amino acids (photo-methionine and photo-leucine) and a covalent fixation of interaction partners. The captured protei...
ORGANISM(S): Homo sapiens (Human) 
2017-04-10 | PXD005349 | Pride
Pkd2 Affinity enrichment Protein interaction Photo-cross-linking Photo-methionine Photo-leucine Orbitrap fusion 
ProteomicsDeciphering Diazirine Reaction Mechanism: through Irradiation Modulation for Residue-Specific Distance Restraints in Protein Photo-Crosslinking
The diazirine photoreactive group has been widely used for photo-labeling and photo-cross-linking (PXL) of proteins. Yet, due to the mechanistic complexity of diazirine photo-reaction, site-specific and quantitative analysis of protein PXL data remains challenging. Herein, we have built an in-line p...
ORGANISM(S): Bos taurus (Bovine) 
2024-06-22 | PXD048452 | Pride
Photo cross-linking Multiple reaction monitoring Optical power density Distance restraints Alkyl diazirine 
ProteomicsCross-linking mass spectrometry for protein structure analysis with homo-bifunctional cross-linkers
Cross-linking mass spectrometry for protein structure analysis with homo-bi-functional photo-activatable cross-linkers. Cross-linkers were applied to BSA, importin-alpha/beta, and dengue NS2b-NS3 protease protein complexes.
ORGANISM(S): Homo Sapiens (human) Cellular Organisms 
2026-01-05 | PXD067180 | JPOST Repository
ProteomicsCleavable Photo-Crosslinker Enables sFFP-Driven Strategy for Mapping HSP90β Oligomer Structure
Crosslinking technology is a pivotal tool for resolving dynamic protein interaction networks. While traditional chemical crosslinkers face limitations in sensitivity, reaction kinetics, and in situ activation, cleavable and photo-crosslinkers have emerged as alternatives. However, their complex spec...
ORGANISM(S): Bos taurus (Bovine) Homo sapiens (Human) 
2026-04-09 | PXD064219 | Pride
Photo-cross-link Hsp90 Randomforest Cleavable cross-linker 
ProteomicsIncorporation of photo-amino acids in HeLa cells
In order to assess the efficiency of photo-labeling, total HeLa cell lysates treated with photo-amino acids were subjected to proteome analysis.
ORGANISM(S): Homo sapiens (Human) 
2017-04-10 | PXD005346 | Pride
Hela cells Incorporation Photo-methionine Photo-leucine Orbitrap fusion 
ProteomicsProtocol for high-yield production of photo-leucine-labeled proteins in Escherichia coli
Cross-linking mass spectrometry (XL-MS) is an emerging technique to obtain structural information of biomacromolecules and their complexes in cells and in vitro. In particular, certain photo-reactive amino acids (pA) such as photo-leucine (pLeu) and photo-methionine can provide unique short-distance...
ORGANISM(S): Escherichia coli 
2020-05-26 | PXD017584 | Pride
High-cell density culture Uv cross-linking Photo-leucine Molecular chaperones Mass spectrometry 
Proteomicsdentification of Cross-linking partners of BpA modified p37 and p97 by photo cross-linking MS
we wanted to see where and how the protein p37 interacts with its partner proteins p97, PPI,Sds22 and I3. To this end p37 derivatives with genetically encoded crosslinking amino acid (p-benzoyl-L-phenylalanine) were generated. After incubation with the partner proteins, photocross-linking and trypt...
ORGANISM(S): Homo sapiens (Human) 
2020-10-19 | PXD021182 | Pride
P37 Ppi Sds22 Photo cross-linking P97 
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