{"id":"https://openalex.org/W4286851769","doi":"https://doi.org/10.3791/2721-v","title":"Transmembrane Domain Oligomerization Propensity determined by ToxR Assay","display_name":"Transmembrane Domain Oligomerization Propensity determined by ToxR Assay","publication_year":2011,"publication_date":"2011-05-26","ids":{"openalex":"https://openalex.org/W4286851769","doi":"https://doi.org/10.3791/2721-v"},"language":"en","primary_location":{"id":"doi:10.3791/2721-v","doi":"https://doi.org/10.3791/2721-v","is_oa":false,"landing_page_url":"https://doi.org/10.3791/2721-v","pdf_url":null,"source":{"id":"https://openalex.org/S199738284","display_name":"Journal of Visualized Experiments","issn_l":"1940-087X","issn":["1940-087X","2834-8400"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-d","jufo-1","ki-jl-1","medline","norway-1","poland-70","russia-white-list-2","vabb-shw"],"host_organization":"https://openalex.org/P4310320416","host_organization_name":"MyJOVE","host_organization_lineage":["https://openalex.org/P4310320416"],"host_organization_lineage_names":["MyJOVE"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Visualized Experiments","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5008063487","display_name":"Catherine Joce","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I188538660","display_name":"University of Colorado Boulder","ror":"https://ror.org/02ttsq026","country_code":"US","type":"education","lineage":["https://openalex.org/I188538660"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Catherine Joce","raw_affiliation_strings":["Department of Chemistry and Biochemistry, University of Colorado at Boulder"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemistry and Biochemistry, University of Colorado at Boulder","institution_ids":["https://openalex.org/I188538660"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021164496","display_name":"Alyssa A. Wiener","orcid":"https://orcid.org/0000-0002-6101-8138","observed_orcids":["https://orcid.org/0000-0002-6101-8138"]},"institutions":[{"id":"https://openalex.org/I188538660","display_name":"University of Colorado Boulder","ror":"https://ror.org/02ttsq026","country_code":"US","type":"education","lineage":["https://openalex.org/I188538660"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alyssa Wiener","raw_affiliation_strings":["Department of Chemistry and Biochemistry, University of Colorado at Boulder"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemistry and Biochemistry, University of Colorado at Boulder","institution_ids":["https://openalex.org/I188538660"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5025581121","display_name":"Hang Hubert Yin","orcid":"https://orcid.org/0000-0002-9762-4818","observed_orcids":["https://orcid.org/0000-0002-9762-4818"]},"institutions":[{"id":"https://openalex.org/I188538660","display_name":"University of Colorado Boulder","ror":"https://ror.org/02ttsq026","country_code":"US","type":"education","lineage":["https://openalex.org/I188538660"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hang Yin","raw_affiliation_strings":["Department of Chemistry and Biochemistry, University of Colorado at Boulder"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemistry and Biochemistry, University of Colorado at Boulder","institution_ids":["https://openalex.org/I188538660"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I188538660"],"apc_list":null,"apc_paid":null,"fwci":0.1294,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.53794573,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":94},"biblio":{"volume":null,"issue":"51","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10407","display_name":"Lipid Membrane Structure and Behavior","score":0.7705000042915344,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10407","display_name":"Lipid Membrane Structure and Behavior","score":0.7705000042915344,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.12449999898672104,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.08250000327825546,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/membrane-protein-dimerization","display_name":"membrane protein dimerization","score":0.6399999856948853},{"id":"https://openalex.org/keywords/escherichia-coli","display_name":"Escherichia coli","score":0.7820000052452087},{"id":"https://openalex.org/keywords/lacz-reporter","display_name":"lacZ reporter","score":0.7269999980926514}],"concepts":[{"id":"https://openalex.org/C24530287","wikidata":"https://www.wikidata.org/wiki/Q424204","display_name":"Transmembrane protein","level":3,"score":0.6875935196876526},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.5365560054779053},{"id":"https://openalex.org/C118892022","wikidata":"https://www.wikidata.org/wiki/Q7834587","display_name":"Transmembrane domain","level":3,"score":0.5274285078048706},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.5182454586029053},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.48355433344841003},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.4609307646751404},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3477962613105774},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3202192187309265},{"id":"https://openalex.org/C41625074","wikidata":"https://www.wikidata.org/wiki/Q176088","display_name":"Membrane","level":2,"score":0.2536202669143677},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.23670914769172668},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.10421189665794373},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.0862061083316803},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.3791/2721-v","doi":"https://doi.org/10.3791/2721-v","is_oa":false,"landing_page_url":"https://doi.org/10.3791/2721-v","pdf_url":null,"source":{"id":"https://openalex.org/S199738284","display_name":"Journal of Visualized Experiments","issn_l":"1940-087X","issn":["1940-087X","2834-8400"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-d","jufo-1","ki-jl-1","medline","norway-1","poland-70","russia-white-list-2","vabb-shw"],"host_organization":"https://openalex.org/P4310320416","host_organization_name":"MyJOVE","host_organization_lineage":["https://openalex.org/P4310320416"],"host_organization_lineage_names":["MyJOVE"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Visualized Experiments","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W1993665526","https://openalex.org/W1965259129","https://openalex.org/W3087126714","https://openalex.org/W2792188126","https://openalex.org/W2315040272","https://openalex.org/W2096934656","https://openalex.org/W3133216089","https://openalex.org/W2006009388","https://openalex.org/W1556758809","https://openalex.org/W2018318072"],"abstract_inverted_index":{"The":[0,231,283],"oversimplified":[1],"view":[2],"of":[3,28,48,63,88,95,101,121,132,144,168,204,216,234,257,260,326,355,368,375,383],"protein":[4,84,135,241,245],"transmembrane":[5,53,93,115,157,217,232,327],"domains":[6,158],"as":[7,238],"merely":[8],"anchors":[9],"in":[10,32,68,72,176,219,296,307,330,380],"phospholipid":[11,221],"bilayers":[12],"has":[13,58],"long":[14],"since":[15],"been":[16],"disproven.":[17],"In":[18,210,264],"many":[19],"cases":[20],"membrane-spanning":[21],"proteins":[22,35,96],"have":[23,287],"evolved":[24],"highly":[25],"sophisticated":[26],"mechanisms":[27],"action.1-3":[29],"One":[30],"way":[31],"which":[33],"membrane":[34,70,134],"can":[36,117,137,159],"modulate":[37],"their":[38,122,197],"structures":[39],"and":[40,45,77,112,195,251,277],"functions":[41],"is":[42,124,183,236,321,336,364],"by":[43,140,315,366,377],"direct":[44,119],"specific":[46],"contact":[47],"hydrophobic":[49],"helices,":[50],"forming":[51],"structured":[52],"oligomers.4,5":[54],"Much":[55],"recent":[56],"work":[57],"focused":[59],"on":[60],"the":[61,69,78,92,109,130,141,145,165,169,202,214,223,249,258,265,324,340,350,356,381,384],"distribution":[62],"amino":[64],"acids":[65],"preferentially":[66],"found":[67],"environment":[71],"comparison":[73],"to":[74,129,179,212,248,253,292,338,349,370],"aqueous":[75],"solution":[76],"different":[79],"intermolecular":[80],"forces":[81],"that":[82,114,310],"drive":[83],"association.6,7":[85],"Nevertheless,":[86],"studies":[87,178],"molecular":[89],"recognition":[90],"at":[91],"domain":[94,233,328],"still":[97],"lags":[98],"behind":[99],"those":[100],"water-soluble":[102],"regions.":[103],"A":[104,361],"major":[105],"hurdle":[106],"remains:":[107],"despite":[108],"remarkable":[110],"specificity":[111],"affinity":[113],"oligomerization":[116,261,342],"achieve,8":[118],"measurement":[120],"association":[123],"challenging.":[125],"Traditional":[126],"methodologies":[127],"applied":[128,278],"study":[131,213],"integral":[133],"function":[136],"be":[138],"hampered":[139],"inherent":[142],"insolubility":[143],"sequences":[146,218],"under":[147,192],"examination.":[148],"Biophysical":[149],"insights":[150],"gained":[151],"from":[152],"studying":[153],"synthetic":[154],"peptides":[155,187],"representing":[156],"provide":[160,254],"useful":[161,322],"structural":[162],"insight.":[163],"However,":[164],"biological":[166],"relevance":[167],"detergent":[170],"micellar":[171],"or":[172],"liposome":[173],"systems":[174],"used":[175,337],"these":[177,193],"mimic":[180],"cellular":[181],"membranes":[182],"often":[184],"questioned;":[185],"do":[186],"adopt":[188],"a":[189,207,239,255,289,302],"native-like":[190],"structure":[191],"conditions":[194],"does":[196],"functional":[198],"behaviour":[199],"truly":[200],"reflect":[201],"mode":[203],"action":[205],"within":[206],"native":[208],"membrane?":[209],"order":[211],"interactions":[215,295],"natural":[220],"bilayers,":[222],"Langosch":[224],"lab":[225],"developed":[226,314],"ToxR":[227,252,280,285,347],"transcriptional":[228],"reporter":[229,281],"assays.9":[230],"interest":[235],"expressed":[237],"chimeric":[240],"with":[242],"maltose":[243],"binding":[244],"for":[246,323,359],"location":[247],"periplasm":[250],"report":[256],"level":[259],"(Figure":[262,390],"1).":[263],"last":[266],"decade,":[267],"several":[268],"other":[269],"groups":[270],"(e.g.":[271],"Engelman,":[272],"DeGrado,":[273],"Shai)":[274],"further":[275],"optimized":[276],"this":[279],"assay.10-13":[282],"various":[284],"assays":[286],"become":[288],"gold":[290],"standard":[291],"test":[293],"protein-protein":[294],"cell":[297],"membranes.":[298],"We":[299],"herein":[300],"demonstrate":[301],"typical":[303],"experimental":[304],"operation":[305],"conducted":[306],"our":[308],"laboratory":[309],"primarily":[311],"follows":[312],"protocols":[313],"Langosch.":[316],"This":[317],"generally":[318],"applicable":[319],"method":[320],"analysis":[325],"self-association":[329],"E.":[331],"coli,":[332],"where":[333],"\u03b2-galactosidase":[334,378],"production":[335,382],"assess":[339],"TMD":[341],"propensity.":[343],"Upon":[344],"TMD-induced":[345],"dimerization,":[346],"binds":[348],"ctx":[351],"promoter":[352],"causing":[353],"up-regulation":[354],"LacZ":[357],"gene":[358],"\u03b2-galactosidase.":[360],"colorimetric":[362],"readout":[363],"obtained":[365],"addition":[367],"ONPG":[369,376],"lyzed":[371],"cells.":[372],"Hydrolytic":[373],"cleavage":[374],"results":[379],"light":[385],"absorbing":[386],"species":[387],"o-nitrophenolate":[388],"(ONP)":[389],"2).":[391]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-10-09T09:14:12.587421","created_date":"2022-07-25T00:00:00"}
