دورية أكاديمية
Structural basis for the allosteric modulation of rhodopsin by nanobody binding to its extracellular domain.
العنوان: | Structural basis for the allosteric modulation of rhodopsin by nanobody binding to its extracellular domain. |
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المؤلفون: | Wu A; Department of Ophthalmology, Gavin Herbert Eye Institute, University of California, Irvine, CA, 92697, USA., Salom D; Department of Ophthalmology, Gavin Herbert Eye Institute, University of California, Irvine, CA, 92697, USA., Hong JD; Department of Ophthalmology, Gavin Herbert Eye Institute, University of California, Irvine, CA, 92697, USA.; Department of Chemistry, University of California, Irvine, CA, 92697, USA., Tworak A; Department of Ophthalmology, Gavin Herbert Eye Institute, University of California, Irvine, CA, 92697, USA., Watanabe K; Department of Life Science and Applied Chemistry, Nagoya Institute of Technology, Showa-ku, Nagoya, 466- 8555, Japan.; PRESTO, Japan Science and Technology Agency, 4-1-8 Honcho, Kawaguchi, Saitama, 332-0012, Japan., Pardon E; Structural Biology Brussels, Vrije Universiteit Brussel, Brussels, Belgium.; VIB-VUB Center for Structural Biology, VIB, Brussels, Belgium., Steyaert J; Structural Biology Brussels, Vrije Universiteit Brussel, Brussels, Belgium.; VIB-VUB Center for Structural Biology, VIB, Brussels, Belgium., Kandori H; Department of Life Science and Applied Chemistry, Nagoya Institute of Technology, Showa-ku, Nagoya, 466- 8555, Japan.; OptoBioTechnology Research Center, Nagoya Institute of Technology, Showa-ku, Nagoya, 466-8555, Japan., Katayama K; Department of Life Science and Applied Chemistry, Nagoya Institute of Technology, Showa-ku, Nagoya, 466- 8555, Japan. katayama.kota@nitech.ac.jp.; PRESTO, Japan Science and Technology Agency, 4-1-8 Honcho, Kawaguchi, Saitama, 332-0012, Japan. katayama.kota@nitech.ac.jp.; OptoBioTechnology Research Center, Nagoya Institute of Technology, Showa-ku, Nagoya, 466-8555, Japan. katayama.kota@nitech.ac.jp., Kiser PD; Department of Ophthalmology, Gavin Herbert Eye Institute, University of California, Irvine, CA, 92697, USA. pkiser@uci.edu.; Department of Physiology & Biophysics, University of California, Irvine, CA, USA. pkiser@uci.edu.; Department of Clinical Pharmacy Practice, University of California, Irvine, CA, USA. pkiser@uci.edu.; Research Service, VA Long Beach Healthcare System, Long Beach, CA, USA. pkiser@uci.edu., Palczewski K; Department of Ophthalmology, Gavin Herbert Eye Institute, University of California, Irvine, CA, 92697, USA. kpalczew@uci.edu.; Department of Chemistry, University of California, Irvine, CA, 92697, USA. kpalczew@uci.edu.; Department of Physiology & Biophysics, University of California, Irvine, CA, USA. kpalczew@uci.edu.; Department of Molecular Biology and Biochemistry, University of California, Irvine, CA, 92697, USA. kpalczew@uci.edu. |
المصدر: | Nature communications [Nat Commun] 2023 Aug 25; Vol. 14 (1), pp. 5209. Date of Electronic Publication: 2023 Aug 25. |
نوع المنشور: | Journal Article; Research Support, Non-U.S. Gov't; Research Support, N.I.H., Extramural; Research Support, U.S. Gov't, Non-P.H.S. |
اللغة: | English |
بيانات الدورية: | Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE |
أسماء مطبوعة: | Original Publication: [London] : Nature Pub. Group |
مواضيع طبية MeSH: | Single-Domain Antibodies* , Camelids, New World* , Ear Auricle*, Animals ; Rhodopsin ; Gene Library |
مستخلص: | Rhodopsin is a prototypical G protein-coupled receptor (GPCR) critical for vertebrate vision. Research on GPCR signaling states has been facilitated using llama-derived nanobodies (Nbs), some of which bind to the intracellular surface to allosterically modulate the receptor. Extracellularly binding allosteric nanobodies have also been investigated, but the structural basis for their activity has not been resolved to date. Here, we report a library of Nbs that bind to the extracellular surface of rhodopsin and allosterically modulate the thermodynamics of its activation process. Crystal structures of Nb2 in complex with native rhodopsin reveal a mechanism of allosteric modulation involving extracellular loop 2 and native glycans. Nb2 binding suppresses Schiff base deprotonation and hydrolysis and prevents intracellular outward movement of helices five and six - a universal activation event for GPCRs. Nb2 also mitigates protein misfolding in a disease-associated mutant rhodopsin. Our data show the power of nanobodies to modulate the photoactivation of rhodopsin and potentially serve as therapeutic agents for disease-associated rhodopsin misfolding. (© 2023. Springer Nature Limited.) |
References: | Proc Natl Acad Sci U S A. 1981 Jan;78(1):152-6. (PMID: 6264430) Nature. 2016 Jul 21;535(7612):448-52. (PMID: 27409812) Nature. 2011 Mar 31;471(7340):651-5. (PMID: 21389988) J Struct Biol. 2000 May;130(1):73-80. (PMID: 10806093) J Biol Chem. 2013 Jun 14;288(24):17698-712. (PMID: 23625926) Nature. 2023 Mar;615(7954):939-944. (PMID: 36949205) Nat Rev Drug Discov. 2017 Dec;16(12):829-842. (PMID: 29075003) J Mol Biol. 2005 Oct 21;353(2):345-56. (PMID: 16169009) Proc Natl Acad Sci U S A. 2003 Mar 4;100(5):2290-5. (PMID: 12601165) Protein Sci. 2018 Jan;27(1):293-315. (PMID: 29067766) Science. 1968 Oct 11;162(3850):230-9. (PMID: 4877437) Cell. 2020 Apr 2;181(1):81-91. (PMID: 32243800) Biochem Pharmacol. 2013 Jan 15;85(2):147-52. (PMID: 22975405) Trends Pharmacol Sci. 2008 Feb;29(2):79-83. (PMID: 18194818) Sci Adv. 2020 Jan 15;6(3):eaax7379. (PMID: 31998837) Acta Crystallogr D Struct Biol. 2018 Apr 1;74(Pt 4):256-263. (PMID: 29652253) Trends Biochem Sci. 2023 Feb;48(2):172-186. (PMID: 36163145) Methods. 2015 Jan;71:104-12. (PMID: 25286328) Acta Crystallogr D Biol Crystallogr. 2011 Apr;67(Pt 4):355-67. (PMID: 21460454) Trends Pharmacol Sci. 2012 Jan;33(1):17-27. (PMID: 22032986) Trends Pharmacol Sci. 2011 Jan;32(1):35-42. (PMID: 21075459) Nat Struct Mol Biol. 2015 Nov;22(11):833-4. (PMID: 26581513) Nature. 1964 Nov 21;204:784-5. (PMID: 14235677) Nat Protoc. 2014 Mar;9(3):674-93. (PMID: 24577359) Nat Chem Biol. 2015 Apr;11(4):280-6. (PMID: 25751279) Proc Natl Acad Sci U S A. 2009 May 26;106(21):8555-60. (PMID: 19433801) Protein Sci. 2019 Feb;28(2):292-304. (PMID: 30239054) J Mol Biol. 2004 Apr 30;338(3):597-609. (PMID: 15081816) Proc Natl Acad Sci U S A. 2022 Nov 08;119(45):e2213911119. (PMID: 36322748) Proc Natl Acad Sci U S A. 2006 Aug 22;103(34):12729-34. (PMID: 16908857) Trends Biochem Sci. 2001 May;26(5):318-24. (PMID: 11343925) Biochemistry. 2005 Jun 7;44(22):7988-97. (PMID: 15924417) J Biol Chem. 2001 Aug 10;276(32):30161-6. (PMID: 11384968) Angew Chem Int Ed Engl. 2006 Jun 26;45(26):4270-3. (PMID: 16586416) Nat Rev Drug Discov. 2017 Sep;16(9):787-810. (PMID: 28706220) J Biol Chem. 2014 Mar 28;289(13):9288-303. (PMID: 24515108) Annu Rev Pharmacol Toxicol. 2017 Jan 6;57:19-37. (PMID: 27959623) Biochemistry. 2003 Aug 19;42(32):9619-25. (PMID: 12911303) Nature. 1963 Mar 30;197:1279-86. (PMID: 14002749) J Biol Chem. 2001 Oct 19;276(42):38487-93. (PMID: 11502747) Vision Res. 1991;31(1):17-31. (PMID: 2006550) Science. 1983 Mar 18;219(4590):1333-5. (PMID: 6828860) Nat Struct Mol Biol. 2009 Feb;16(2):168-75. (PMID: 19182802) EMBO J. 2002 Apr 2;21(7):1628-37. (PMID: 11927547) J Biol Chem. 2013 Dec 20;288(51):36272-84. (PMID: 24196967) Proc Natl Acad Sci U S A. 2006 Oct 31;103(44):16123-8. (PMID: 17060607) Proc Natl Acad Sci U S A. 2017 Mar 28;114(13):E2608-E2615. (PMID: 28289214) Methods Enzymol. 1982;81:48-52. (PMID: 6212746) J Gen Physiol. 1963 Nov;47:215-40. (PMID: 14080814) Nat Commun. 2021 Feb 5;12(1):815. (PMID: 33547286) J Biol Chem. 1988 Aug 25;263(24):11768-75. (PMID: 2457026) Acta Crystallogr D Biol Crystallogr. 2010 Feb;66(Pt 2):133-44. (PMID: 20124693) Pharmacol Rev. 2021 Jan;73(1):120-151. (PMID: 33268549) Science. 2000 Aug 4;289(5480):739-45. (PMID: 10926528) J Clin Invest. 2000 Apr;105(7):887-95. (PMID: 10749568) Biochemistry. 1993 Oct 5;32(39):10277-82. (PMID: 8399169) Proc Natl Acad Sci U S A. 2008 Jul 22;105(29):9855-62. (PMID: 18632568) Proc Natl Acad Sci U S A. 1989 Nov;86(21):8309-13. (PMID: 2573063) Cell. 2018 Jan 11;172(1-2):55-67.e15. (PMID: 29307491) Nat Chem Biol. 2019 Jan;15(1):11-17. (PMID: 30510194) Nature. 2011 Jan 13;469(7329):175-80. (PMID: 21228869) ACS Pharmacol Transl Sci. 2020 Mar 17;3(2):237-245. (PMID: 32296765) Pept Res. 1988 Sep-Oct;1(1):42-7. (PMID: 2485225) J Biol Chem. 2019 Sep 27;294(39):14215-14230. (PMID: 31399513) Acta Crystallogr D Biol Crystallogr. 2008 Jan;64(Pt 1):125-32. (PMID: 18094476) J Biol Chem. 2021 Dec;297(6):101401. (PMID: 34774799) Cell Rep. 2020 Feb 11;30(6):1714-1723.e6. (PMID: 32049005) Proc Natl Acad Sci U S A. 2009 Aug 25;106(34):14367-72. (PMID: 19706523) Acta Crystallogr D Biol Crystallogr. 2010 Apr;66(Pt 4):486-501. (PMID: 20383002) Curr Opin Struct Biol. 2017 Aug;45:124-132. (PMID: 28482214) Cell Signal. 2017 May;33:1-9. (PMID: 28188824) EMBO J. 2004 Sep 15;23(18):3609-20. (PMID: 15329674) J Biol Chem. 2003 May 9;278(19):16982-91. (PMID: 12547830) Proc Natl Acad Sci U S A. 1993 Nov 1;90(21):10206-10. (PMID: 7901852) Dalton Trans. 2019 Jul 16;48(28):10581-10595. (PMID: 31218312) Acta Crystallogr D Struct Biol. 2018 Jul 1;74(Pt 7):655-670. (PMID: 29968675) Biochemistry. 2003 Jul 22;42(28):8494-500. (PMID: 12859195) Vision Res. 1983;23(10):971-82. (PMID: 6606261) J Appl Crystallogr. 2007 Aug 1;40(Pt 4):658-674. (PMID: 19461840) EMBO J. 2013 May 15;32(10):1478-88. (PMID: 23584533) Biochemistry. 2002 Mar 19;41(11):3620-7. (PMID: 11888278) J Biol Chem. 2004 Apr 16;279(16):16278-84. (PMID: 14769795) Proc Natl Acad Sci U S A. 2002 Oct 15;99(21):13419-24. (PMID: 12370423) Front Mol Biosci. 2022 May 23;9:863099. (PMID: 35677880) Biochemistry. 1994 Sep 13;33(36):10878-82. (PMID: 7916209) Nat Commun. 2018 May 17;9(1):1976. (PMID: 29773803) J Biol Chem. 2015 Aug 14;290(33):20117-27. (PMID: 26105054) Proc Natl Acad Sci U S A. 2017 Aug 1;114(31):8223-8228. (PMID: 28716900) Nature. 2010 Apr 29;464(7293):1386-9. (PMID: 20383122) Nature. 2022 Apr;604(7905):384-390. (PMID: 35388214) Structure. 2011 Oct 12;19(10):1395-412. (PMID: 22000512) J Chromatogr A. 2013 Jan 4;1271(1):67-70. (PMID: 23219476) Proc Natl Acad Sci U S A. 1994 Apr 26;91(9):4024-8. (PMID: 8171029) |
معلومات مُعتمدة: | P30 EY034070 United States EY NEI NIH HHS; I01 BX004939 United States BX BLRD VA; R01 EY034519 United States EY NEI NIH HHS; P30 GM124165 United States GM NIGMS NIH HHS; F30 EY033659 United States EY NEI NIH HHS; P41 GM103393 United States GM NIGMS NIH HHS |
المشرفين على المادة: | 9009-81-8 (Rhodopsin) 0 (Single-Domain Antibodies) |
تواريخ الأحداث: | Date Created: 20230825 Date Completed: 20230828 Latest Revision: 20240212 |
رمز التحديث: | 20240212 |
مُعرف محوري في PubMed: | PMC10457330 |
DOI: | 10.1038/s41467-023-40911-9 |
PMID: | 37626045 |
قاعدة البيانات: | MEDLINE |
تدمد: | 2041-1723 |
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DOI: | 10.1038/s41467-023-40911-9 |