{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,5,30]],"date-time":"2024-05-30T02:51:13Z","timestamp":1717037473465},"reference-count":83,"publisher":"Wiley","issue":"11","license":[{"start":{"date-parts":[[2009,1,1]],"date-time":"2009-01-01T00:00:00Z","timestamp":1230768000000},"content-version":"vor","delay-in-days":1888,"URL":"http:\/\/onlinelibrary.wiley.com\/termsAndConditions#vor"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Protein Science"],"published-print":{"date-parts":[[2003,11]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Rhodopsin is the best\u2010understood member of the large G protein\u2013coupled receptor (GPCR) superfamily. The G\u2010protein amplification cascade is triggered by poorly understood light\u2010induced conformational changes in rhodopsin that are homologous to changes caused by agonists in other GPCRs. We have applied the \u201cantibody imprint\u201d method to light\u2010activated rhodopsin in native membranes by using nine monoclonal antibodies (mAbs) against aqueous faces of rhodopsin. Epitopes recognized by these mAbs were found by selection from random peptide libraries displayed on phage. A new computer algorithm, FINDMAP, was used to map the epitopes to discontinuous segments of rhodopsin that are distant in the primary sequence but are in close spatial proximity in the structure. The proximity of a segment of the N\u2010terminal and the loop between helices VI and VIII found by FINDMAP is consistent with the X\u2010ray structure of the dark\u2010adapted rhodopsin. Epitopes to the cytoplasmic face segregated into two classes with different predicted spatial proximities of protein segments that correlate with different preferences of the antibodies for stabilizing the metarhodopsin I or metarhodopsin II conformations of light\u2010excited rhodopsin. Epitopes of antibodies that stabilize metarhodopsin II indicate conformational changes from dark\u2010adapted rhodopsin, including rearrangements of the C\u2010terminal tail and altered exposure of the cytoplasmic end of helix VI, a portion of the C\u20103 loop, and helix VIII. As additional antibodies are subjected to antibody imprinting, this approach should provide increasingly detailed information on the conformation of light\u2010excited rhodopsin and be applicable to structural studies of other challenging protein targets.<\/jats:p>","DOI":"10.1110\/ps.03233703","type":"journal-article","created":{"date-parts":[[2003,10,22]],"date-time":"2003-10-22T19:41:48Z","timestamp":1066851708000},"page":"2453-2475","source":"Crossref","is-referenced-by-count":12,"title":["Constraints on the conformation of the cytoplasmic face of dark\u2010adapted and light\u2010excited rhodopsin inferred from antirhodopsin antibody imprints"],"prefix":"10.1002","volume":"12","author":[{"given":"Brian W.","family":"Bailey","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Brendan","family":"Mumey","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Paul A.","family":"Hargrave","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Anatol","family":"Arendt","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Oliver P.","family":"Ernst","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Klaus Peter","family":"Hofmann","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Patrik R.","family":"Callis","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"James B.","family":"Burritt","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Algirdas J.","family":"Jesaitis","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Edward A.","family":"Dratz","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"311","published-online":{"date-parts":[[2009,1]]},"reference":[{"key":"e_1_2_6_2_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.95.22.12854"},{"key":"e_1_2_6_3_1","doi-asserted-by":"publisher","DOI":"10.1016\/0042-6989(91)90069-H"},{"key":"e_1_2_6_4_1","doi-asserted-by":"publisher","DOI":"10.1021\/bi011545o"},{"key":"e_1_2_6_5_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.90.16.7849"},{"key":"e_1_2_6_6_1","volume-title":"Algorithms and theory of computation handbook","author":"Atallah M.J.","year":"1999"},{"key":"e_1_2_6_7_1","first-page":"28","volume-title":"Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology","author":"Bailey T.L.","year":"1994"},{"key":"e_1_2_6_8_1","volume-title":"Phage display: A laboratory manual","author":"Barbas C.F.","year":"2001"},{"key":"e_1_2_6_9_1","doi-asserted-by":"publisher","DOI":"10.1113\/jphysiol.1988.sp017164"},{"key":"e_1_2_6_10_1","doi-asserted-by":"publisher","DOI":"10.1007\/978-1-4613-0331-2_8"},{"key":"e_1_2_6_11_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/28.1.235"},{"key":"e_1_2_6_12_1","doi-asserted-by":"publisher","DOI":"10.1016\/S0014-5793(97)01201-5"},{"key":"e_1_2_6_13_1","doi-asserted-by":"publisher","DOI":"10.1016\/0022-2836(91)90528-E"},{"key":"e_1_2_6_14_1","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.270.28.16974"},{"key":"e_1_2_6_15_1","doi-asserted-by":"publisher","DOI":"10.1006\/abio.1996.0241"},{"key":"e_1_2_6_16_1","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.273.38.24847"},{"key":"e_1_2_6_17_1","doi-asserted-by":"publisher","DOI":"10.1034\/j.1600-0609.2000.065006407.x"},{"key":"e_1_2_6_18_1","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.M006236200"},{"key":"e_1_2_6_19_1","doi-asserted-by":"publisher","DOI":"10.1385\/MB:12:2:143"},{"key":"e_1_2_6_20_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.051632898"},{"key":"e_1_2_6_21_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.93.5.1997"},{"key":"e_1_2_6_22_1","doi-asserted-by":"publisher","DOI":"10.1006\/jmbi.1993.1259"},{"key":"e_1_2_6_23_1","doi-asserted-by":"publisher","DOI":"10.1006\/jmbi.1998.2439"},{"key":"e_1_2_6_24_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.87.16.6378"},{"key":"e_1_2_6_25_1","doi-asserted-by":"publisher","DOI":"10.1021\/bi980148j"},{"key":"e_1_2_6_26_1","doi-asserted-by":"publisher","DOI":"10.1093\/protein\/10.8.877"},{"key":"e_1_2_6_27_1","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1073\/pnas.93.1.7","article-title":"Interactions of protein antigens with antibodies","volume":"93","author":"Davies D.R.","year":"1996","journal-title":"Proc. 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