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ProteomicsA novel translocon for biogenesis of multi-pass membrane proteins
A novel 370 kDa translocon comprising Sec61 and five accessory factors acting co-translationally with ribosomes to fold and insert multi-pass membrane proteins was identified, purified and analyzed structurally by single particle cryo-EM and cross-linking mass spectrometry. The purified ribosome-tr...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2019-07-08 | MSV000084065 | MassIVE
ProteomicsThe nucleosomal acidic patch relieves auto-inhibition by the ISWI remodeler SNF2h
Domain level interactions between the ISWI remodeler SNF2h and reconstituted mononucleosomes were probed by EDC crosslinking under different biochemical conditions: ADP, ADP-BeFx, ADP-BeFx with LANA peptide added (which binds at the acidic patch). A semi quantitative approach was used to monitor do...
ORGANISM(S): Xenopus Laevis (ncbitaxon:8355) Homo Sapiens (ncbitaxon:9606) 
2018-03-07 | MSV000082136 | MassIVE
ProteomicsAutoinhibition of Trio guanine nucleotide exchange factor activity for Rac1 by its spectrin repeats is disrupted by neurodevelopmental disorder-related genetic variants
Crosslinking MS of SR6-GEF1 construct of Human Trio. BS3 crosslinking of wild-type and three point mutants implicated in neurodevelopmental disorders (E883D, R1078Q, D1368V). Data acquired using FAIMS ion mobility source with each sample acquired at 4 different CVs (-40, -50, -60, -70V).
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2022-06-08 | MSV000089621 | MassIVE
ProteomicsStructure of a Complete Mediator-RNA Polymerase II Pre-Initiation Complex, and the Regulation of Transcription
MedPIC: Crosslinking-MS of 54 subunit pre-initiation complex from yeast. MedPolII: Crosslinking-MS of 33 subunit Mediator + polII complex from yeast.
ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932) 
2016-08-02 | MSV000080013 | MassIVE
ProteomicsLEM2 phase separation promotes ESCRT-mediated nuclear envelope reformation
Quantitative crosslinking analysis to probe in vitro conformational dynamics governing ESCRT-mediated nuclear envelope formation. CHMP7 was crosslinked with D12-BS3 while CHMP7 in the presence of LEM2 winged helix domain was crosslinked with H12-BS3. Samples were mixed after crosslinking and analy...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2020-01-24 | MSV000084837 | MassIVE
ProteomicsA novel mechanism for NF-kB activation via IkB aggregation
Proteins which interact with IkBa in insoluble aggregates known as Mallory-Denk bodies were characterized by AP-MS, Biotinylation by antibody recognition (BAR), and LCMS analysis of detergent solubalized aggregates. See the supplementary table (S12) for file annotation.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2020-08-31 | MSV000086042 | MassIVE
ProteomicsStructural basis of the SWI/SNF-bound transcription pre-initiation complex
DSSO crosslinking of SwiSnf + Mediator + Pre-initiation Complex. Two replicate experiments starting with 300 ug of protein and 6 mM DSSO. Crosslinked peptides were fractionated by size-exclusion chromatography (SEC) and 8 SEC were analyzed by LC-MS on an Orbitrap Exploris 480 instrument. The first s...
ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932) 
2025-05-14 | MSV000097892 | MassIVE
ProteomicsAn intrinsically disordered region of histone demethylase KDM5A regulates catalysis through interactions with the nucleosomal acidic patch and DNA
KDM5A lysine demethylase conformation was probed by BS3 crosslinking in the presence and absence of DNA. Crosslinked proteins were reduced, alkylated with iodoacetamide, trypsin digest, and labeled with TMT6plex reagent prior to mixing and acquisition on an Orbitrap Exploris equiped with a FAIMS sou...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2025-02-10 | MSV000097094 | MassIVE
ProteomicsMolecular Architecture of the Yeast Mediator Complex
Cross-linking MS data from the yeast Mediator complex. Cross-linking was performed using either BS3 or 1:1 mix of d0:d12 DSS. Includes unfractionated, SEC enriched, high pH reverse phase fractionated, DDA and inclusion list generated files.
ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932) 
2015-08-13 | MSV000079237 | MassIVE
ProteomicsHepatic p62, a major autophagic receptor in CYP4A ALD
In cell DSS crosslinking of HEK293 cells expressing His-tagged CYP4A11 and HA-tagged p62. Cells were treated with DSS, lysed, and enriched by Ni-NTA affinity chromatography. The eluate was separated by SDS-PAGE and the CYP-p62 crosslinked band identified by multi-channel western blot visualization. ...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2025-01-10 | MSV000096827 | MassIVE
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