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For site-specific crosslinking experiments, cells were grown in medium containing 0.2 mM (S)-2-amino-6-(3-(3-(3-methyl-3H-diazirin-3-yl)propyl)ureido)hexanoic acid (DiZPK) and were co-transfected with a vector encoding the aminoacyl-tRNA synthetase/tRNA pair. Cells were irradiated with 365 nm UV light for 20 min, while control samples were kept in the dark prior to harvest. For global lysine crosslinking, di(N-succinimidyl) 3,3′-dithiodipropionate (DSP) was added to the cells and incubated at 37 °C for 20 min. DMSO was added to the control samples prior to harvest. Cells were washed twice with cold PBS, scraped, and harvested. The bait proteins were affinity-purified using V5 nanobody magnetic agarose beads. Protein samples were processed using the Filter-Aided Sample Preparation (FASP) method. Samples were reduced with TCEP, alkylated with iodoacetamide, and washed with TEAB buffer on filter units. Proteins were then digested with trypsin (1:50 enzyme-to-protein ratio) at 47 °C for 4–18 h. Peptides were recovered by centrifugation, acidified with formic acid and TFA, and desalted using Sep-Pak plates.Tryptic peptides were then separatedby reverse phase XSelect CSH C18 2.5 um resin (Waters) on an in-line 150 x0.075 mm column using an UltiMate 3000 RSLCnano system (Thermo Scientific).Peptides were eluted using a 60 min gradient from 98:2 to 65:35 buffer A:Bratio. Eluted peptides were ionized by electrospray (2.4 kV) through a heatedcapillary (275 °C) followed by data collection on an Orbitrap Exploris 480 massspectrometer (Thermo Scientific). Precursor spectra were acquired witha scan from 385-1015 Th at a resolution set to 60,000 with 100% AGC, max timeof 50 msec, and an RF parameter at 40%. DIA was configured on the Orbitrap 480to acquire 40 x 15 Th isolation windows, normalized AGC target 500%, maximuminjection time 40 ms). A second DIA was acquired in a staggered window (15 Th)pattern with optimized window placements from 390-990 Th. Buffer A = 0.1%formic acid, 0.5% acetonitrile. Buffer B = 0.1% formic acid, 99.9% acetonitrile."],"repository":["Pride"],"quantification_method":["Not available"],"modification":[""],"data_protocol":["Raw DIA data were processed in Spectronaut (Biognosys, version 20.1) using the directDIA workflow and searched against the UniProt Homo sapiens database (6th version of 2024). Identification thresholds were set to 1% q-value at both precursor and protein levels, with decoy generation enabled. Protein inference was performed using the maxLFQ workflow with the IDPicker inference algorithm, MS2-level quantification, no cross-run normalization, and protein grouping quantification based on mean peptide and precursor quantities. Only proteins identified with at least two peptides were retained for downstream analysis. Protein MS2 intensity distributions were assessed using ProteiNorm. For AP-MS-DIA data, proteins detected in at least four of five biological replicates were retained; for crosslinking data, proteins detected in at least two of three biological replicates were retained. Data were log2 transformed, normalized using quantile normalization, and missing values were imputed with the BPCA method implemented in NAguideR. Differential abundance analysis was performed with proteoDA using limma and empirical Bayes moderation. Proteins were considered significantly enriched at an FDR-adjusted p value below 0.05 and fold change greater than 2."],"omics_type":["Proteomics"],"labhead":["Sharon Rozovsky"],"instrument_platform":[""],"labhead_affiliation":["Department of Chemistry and Biochemistry, University of Delaware, Newark, DE, 19716 USA"],"submission_type":["PARTIAL"],"species":["Homo Sapiens (human)"],"publication":["42628240 Ghelichkhani F, Kapitonova MA, Odunsi A, Rahmani E, Rosas Bringas OG, Kaniyar MH, LaCava J, Rozovsky S. Selenoprotein S associates with complexes governing membrane protein biogenesis and translation-associated processes. Redox Biol. 2026 96:104336 10.1016/j.redox.2026.104336"],"submitter_mail":["farid@udel.edu"],"submitter_affiliation":["University of Delaware"],"submitter_country":["United States"],"pubmed_abstract":["Human selenoprotein S (selenos) is part of the integrated cellular stress response and linked to protein quality control and signaling pathways. Consequently, genetic polymorphisms of selenos are associated with increased risks for diabetes, dyslipidemia, and cardiovascular diseases. Determining the specific roles of selenos in these cellular pathways and diseases has been challenging, as selenos associates with a wide range of protein complexes. Thus, to map the cellular functions of selenos and uncover their interconnections, we used affinity purification and in vivo crosslinking to stabilize transient protein interactions, followed by proteomics to record the resulting selenos interactome. Through mapping of selenos protein partners, we found evidence that selenos associates with complexes responsible for the insertion of membrane proteins into the endoplasmic reticulum (ER) bilayer and their connected quality control components. Furthermore, selenos is also part of metabolic, trafficking, and mitochondrial pathways. Notably, proteins involved in translation preferentially associate with selenos when its C-terminal intrinsically disordered segment containing the redox-active motif is accessible. Together, these results identify the C-terminal redox loop of selenos as a central interaction hub connecting translation with ER membrane protein biogenesis and quality control."],"pubmed_title":["Selenoprotein S associates with complexes governing membrane protein biogenesis and translation-associated processes."],"pubmed_authors":["Ghelichkhani Farid F, Kapitonova Mariia A MA, Odunsi Atinuke A, Rahmani Erfan E, Rosas Bringas Omar G OG, Kaniyar Mohammed Hanzala MH, LaCava John J, Rozovsky Sharon S"],"additional_accession":[]},"is_claimable":false,"name":"Selenoprotein S plays role in translation and membrane protein biogenesis","description":"Human selenoprotein S (selenos) is part of the integrated cellular stress response and linked to protein quality control and signaling pathways. Consequently, genetic polymorphisms of selenos are associated with increased risk for diabetes, dyslipidemia, and cardiovascular diseases. Determining the specific roles of selenos in these cellular pathways and diseases has been challenging, as selenos associates with a wide range of protein complexes. Thus, to map the cellular functions of selenos and uncover their interconnections, we used in vivo crosslinking to stabilize transient protein interactions, followed by proteomics to record the resulting selenos interactome.","dates":{"publication":"2026-09-14","submission":"2026-03-12"},"accession":"PXD075535","cross_references":{"TAXONOMY":["NEWT:6945","NEWT:3555","NEWT:241368","NEWT:2","NEWT:157546","NEWT:190802","NEWT:35554","NEWT:150475","NEWT:9417","NEWT:347515","NEWT:1216979","NEWT:307972","NEWT:544496","NEWT:5180","NEWT:256737","NEWT:115104","NEWT:1081927","NEWT:67825","NEWT:13076","NEWT:1249668","NEWT:376741","NEWT:317","NEWT:1736309","NEWT:7227","NEWT:7469","NEWT:885318","NEWT:4081","NEWT:876138","NEWT:554","NEWT:98334","NEWT:237561","NEWT:10036","NEWT:7574","NEWT:1351","NEWT:7215","NEWT:272563","NEWT:79220","NEWT:507601","NCBITaxon:79857","NCBITaxon:6157","NEWT:95648","NEWT:746360","NEWT:6239","NEWT:1589","NEWT:470150","NEWT:135622","NEWT:216257","NEWT:6915","NEWT:9986","NEWT:101510","NEWT:4054","NEWT:3880","NEWT:8782","NEWT:1000589","NEWT:1902","NEWT:85962","NEWT:160488","NEWT:28104","NEWT:317447","NEWT:7955","NCBITaxon:2","NEWT:985076","NEWT:7959","NEWT:2261","NEWT:623","NEWT:4565","NEWT:1264690","NEWT:6192","NEWT:28532","NCBITaxon:38727","NEWT:34305","NEWT:59729","NCBITaxon:183674","NEWT:224308","NEWT:626528","NEWT:139927","NEWT:4558","NEWT:209285","NEWT:211586","NEWT:216595","NEWT:243230","NEWT:8355","NEWT:931281","NEWT:7029","NEWT:1283300","NEWT:334747","NCBITaxon:79824","NCBITaxon:4563","NEWT:5755","NEWT:3218","NEWT:5759","NEWT:1736231","NEWT:436486","NEWT:6287","NEWT:2242","NEWT:300641","NEWT:4784","NEWT:727","NEWT:9796","NEWT:725","NEWT:360106","NEWT:260707","NEWT:287","NEWT:10117","NEWT:10239","NEWT:10116","NEWT:1280","NEWT:1836","NEWT:1735272","NEWT:83334","NEWT:83332","NEWT:29760","NEWT:703612","NEWT:260705","NEWT:80863","NEWT:2697049","NEWT:1148","NEWT:11676","NEWT:55571","NEWT:100226","NCBITaxon:6073","NEWT:4530","NEWT:4896","NEWT:6279","NEWT:7370","NEWT:6282","NEWT:1134506","NEWT:575584","NEWT:1773","NEWT:38783","NEWT:8727","NEWT:1895","NEWT:1182590","NEWT:8726","NEWT:10090","NEWT:935293","NEWT:749200","NEWT:4120","NEWT:5693","NEWT:8724","NEWT:51511","NEWT:92867","NEWT:8723","NEWT:990346","NEWT:5334","NEWT:145953","NEWT:257309","NEWT:230741","NEWT:284812","NCBITaxon:10359","NCBITaxon:1313","NEWT:43330","NEWT:242619","NEWT:44544","NEWT:373995","NEWT:544404","NEWT:3702","NEWT:129249","NEWT:8839","NEWT:4232","NEWT:990119","NEWT:4113","NEWT:11298","NEWT:171101","NEWT:196627","NEWT:408172","NEWT:5691","NEWT:408170","NEWT:493760","NEWT:260710","NEWT:627025","NEWT:400772","NEWT:1097677","NEWT:3708","NEWT:106592","NEWT:9913","NEWT:1432138","NEWT:10312","NEWT:4100","NEWT:1076","NEWT:6763","NEWT:3498","NEWT:803","NEWT:8030","NEWT:29722","NEWT:380394","NEWT:1692259","NEWT:1639","NEWT:188229","NEWT:3818","NEWT:480","NEWT:4909","NEWT:67767","NEWT:135588","NEWT:1843183","NEWT:95486","NEWT:58002","NEWT:9103","NEWT:4577","NEWT:5664","NEWT:2157","NEWT:146479","NEWT:10306","NEWT:1911079","NEWT:145943","NCBITaxon:620","NEWT:3635","NEWT:235443","NEWT:1480154","NEWT:1274414","NEWT:3197","NEWT:9615","NEWT:10299","NEWT:2719099","NEWT:860688","NEWT:884019","NEWT:169963","NEWT:36329","NEWT:9606","NEWT:367830","NEWT:157295","NEWT:410289","NEWT:373153","NEWT:915099","NEWT:74940","NEWT:1450511","NEWT:470","NEWT:84023","NEWT:9838","NCBITaxon:9615","NEWT:1193501","NEWT:3055","NEWT:6326","NEWT:6689","NEWT:2762","NEWT:5476","NEWT:1174673","NEWT:562","NEWT:1274432","NEWT:1274426","NEWT:1423","NEWT:4932","NEWT:70448","NEWT:9825","NEWT:1274423","NEWT:3603","NEWT:698936","NEWT:2759","NEWT:3847","NEWT:39946","NEWT:9823","NEWT:9940","NEWT:573","NEWT:9031","NEWT:1274420","NEWT:7091"],"pubmed":["42628240"],"ORCID":["0000-0001-7342-7361"]}}