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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 
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 
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
ProteomicsIdentification of novel ubiquitin receptors on the 26S proteasome by photo-crosslinking mass spectrometry
The 26S proteasome is the endpoint of the ubiquitin-proteasome system, an essential pathway for maintaining cellular homeostasis through targeted degradation of misfolded, damaged, and obsolete proteins. Substrates labeled with ubiquitin are directed to the 26S proteasome by binding to one or more u...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2026-06-08 | PXD075114 | Pride
26s proteasome Ubiquitin Ubiquitin receptors 
UnknownPhoto-crosslinking polymers by dynamic covalent disulfide bonds.
Not available
S-EPMC8477374 | biostudies-literature
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 
ProteomicsAlphaLink: bringing protein structure prediction in situ with in-cell photo-crosslinking mass spectrometry, crosslinking mass spectrometry, XL-MS,
The protein structure prediction problem has been revolutionised by AlphaFold2, an algorithm that uses neural networks and evolutionary information to predict accurate models from the primary sequence. However, some proteins remain difficult to predict. Moreover, proteins are dynamic entities that e...
ORGANISM(S): Escherichia Coli 
2023-02-22 | PXD036833 | JPOST Repository
ProteomicsSingle electron transfer between sulfonium and tryptophan enables site-selective photo crosslinking of methyllysine reader proteins
Reader proteins play significant roles in cell signaling from site-specific lysine methylation, but progress of new reader investigations is rather slow. Photoreactive crosslinkers enable the discovery of reader proteins, but the chemical synthesis required to optimize the placement of the photorea...
ORGANISM(S): Homo sapiens (Human) 
2024-06-30 | PXD051693 | Pride
Methyllysine readers Sulfonium Tryptophan Photo crosslinking 
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 |
UnknownStructure-based prediction and characterization of photo-crosslinking in native protein-RNA complexes.
Not available
S-EPMC10937933 | biostudies-literature
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