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ProteomicsQuantitative photo-crosslinking mass spectrometry reveals protein structure response to environmental changes
Conformational changes of protein structures depend on their chemical and physical environment. Studying conformational changes depending on environmental parameters is notoriously difficult as many methods of structural biology are affected by parameters like temperature or pH. To make such conform...
ORGANISM(S): Bos taurus (Bovine) Homo sapiens (Human) 
2019-07-01 | PXD012939 | Pride
Data-independent acquisition Structural dynamics Human serum albumin Dia-qclms Quantitation Xi Cytochrome c Spectronaut Label-free Mass spectrometry Photo-crosslinking Cross-linking Sda 
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 
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 
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 
ProteomicsA Chemical Tool for Blue Light-Inducible Proximity Photo-crosslinking in Live Cells
We developed a proximity photo-crosslinking method (Spotlight) with a 4-azido-N-ethyl-1,8-naphthalimide (AzNP) moiety that can be converted to reactive aryl nitrene species using ambient blue light-emitting diode light. Using an AzNP-conjugated HaloTag ligand (VL1), blue light-induced photo-crosslin...
ORGANISM(S): Homo sapiens (Human) 
2022-04-04 | PXD027149 | Pride
Proximity crosslinking / sars-cov-2 / nucleocapsid 
ProteomicsProgress Toward Proteome-Wide Photo-Crosslinking to Enable Residue-Level Visualization of Protein Structure and Networks in vivo
Crosslinking mass spectrometry (XL-MS) is emerging as a method at the crossroads of structural and cellular biology, uniquely capable of identifying protein-protein interactions with residue-level resolution and on the proteome-wide scale. With the development of crosslinkers that can form linkages ...
ORGANISM(S): Escherichia coli 
2023-06-27 | PXD041148 | Pride
Diazirines Cleavable cross-linkers Proteomics Quinary interactions Nhs-carbamate. Photo-crosslinking Protein interaction networks 
ProteomicsSite-selective photo crosslink to methyllysine readers via single electron transfer between sulfonium and tryptophan
Reader proteins play significant roles in cell signaling from site-specific lysine methylation, but the progress of new reader investigations is rather slow. Photoreactive crosslinkers enable reader identifications, but it requires laborious chemical synthesis for optimization of the photoreactive g...
ORGANISM(S): Homo Sapiens 
2024-02-04 | PXD049149 |
ProteomicsProteome-Wide Photo-Crosslinking Enables Residue-Level Visualization of Protein Interaction Networks in vivo
Crosslinking mass spectrometry (XL-MS) is emerging as a unique method at the crossroads of structural and cellular biology, uniquely capable of identifying protein-protein interactions with residue-level resolution and on the proteome-wide scale. With the development of crosslinkers that can form li...
ORGANISM(S): Escherichia coli 
2023-12-07 | PXD036884 | Pride
Heterobifunctional crosslinker Escherichia coli Xl-ms Diazirine Cleavable crosslinker Photo-crosslinking Proteome-wide Nhs-carbamate 
ProteomicsA Cell-Permeable Photosensitizer for Selective Proximity Labeling and Crosslinking of Aggregated Proteome
Intracellular proteome aggregation is a ubiquitous disease hallmark with its composition associated with pathogenicity. Herein, we report on a cell-permeable photosensitizer (P8, Rose Bengal derivative) for selective photo-induced proximity labeling, crosslinking and identification of cellular aggre...
ORGANISM(S): Homo Sapiens 
2023-08-30 | PXD044948 |
OtherHigh Resolution N6-Methyladenosine (m6A) Map Using Photo-crosslinking-Assisted m6A Sequencing
We present here a photo-crosslinking-assisted m6A sequencing strategy to more accurately define sites with m6A modifications. Using this strategy, we obtained a high-resolution map of m6A in a human transcriptome. The map resembles the general distribution pattern observed previously, and reveals ne...
ORGANISM(S): Homo sapiens 
2015-01-08 | GSE54921 | GEO
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