Structures of LRP2 reveal a molecular machine for endocytosis.


Journal

Cell
ISSN: 1097-4172
Titre abrégé: Cell
Pays: United States
ID NLM: 0413066

Informations de publication

Date de publication:
16 02 2023
Historique:
received: 11 10 2022
revised: 29 11 2022
accepted: 10 01 2023
pubmed: 8 2 2023
medline: 25 2 2023
entrez: 7 2 2023
Statut: ppublish

Résumé

The low-density lipoprotein (LDL) receptor-related protein 2 (LRP2 or megalin) is representative of the phylogenetically conserved subfamily of giant LDL receptor-related proteins, which function in endocytosis and are implicated in diseases of the kidney and brain. Here, we report high-resolution cryoelectron microscopy structures of LRP2 isolated from mouse kidney, at extracellular and endosomal pH. The structures reveal LRP2 to be a molecular machine that adopts a conformation for ligand binding at the cell surface and for ligand shedding in the endosome. LRP2 forms a homodimer, the conformational transformation of which is governed by pH-sensitive sites at both homodimer and intra-protomer interfaces. A subset of LRP2 deleterious missense variants in humans appears to impair homodimer assembly. These observations lay the foundation for further understanding the function and mechanism of LDL receptors and implicate homodimerization as a conserved feature of the LRP receptor subfamily.

Identifiants

pubmed: 36750096
pii: S0092-8674(23)00046-6
doi: 10.1016/j.cell.2023.01.016
pmc: PMC9993842
mid: NIHMS1875572
pii:
doi:

Substances chimiques

Ligands 0
Low Density Lipoprotein Receptor-Related Protein-2 0
LRP2 protein, human 0
Lrp2 protein, mouse 0

Types de publication

Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

821-836.e13

Subventions

Organisme : NINDS NIH HHS
ID : U01 NS110438
Pays : United States
Organisme : NIDDK NIH HHS
ID : R01 DK124667
Pays : United States
Organisme : NIDDK NIH HHS
ID : U54 DK104309
Pays : United States
Organisme : NIDDK NIH HHS
ID : T32 DK108741
Pays : United States
Organisme : NCRR NIH HHS
ID : S10 RR027990
Pays : United States

Informations de copyright

Copyright © 2023 Elsevier Inc. All rights reserved.

Déclaration de conflit d'intérêts

Declaration of interests The authors declare no competing interests.

Références

Rev Physiol Biochem Pharmacol. 2007;158:1-22
pubmed: 17729440
J Am Soc Nephrol. 1998 Oct;9(10):1759-66
pubmed: 9773776
J Mol Biol. 1998 Nov 6;283(4):837-62
pubmed: 9790844
Science. 2002 Dec 20;298(5602):2353-8
pubmed: 12459547
Dev Cell. 2011 Nov 15;21(5):848-61
pubmed: 22000855
Nucleic Acids Res. 2016 Jul 8;44(W1):W344-50
pubmed: 27166375
J Cereb Blood Flow Metab. 2007 May;27(5):909-18
pubmed: 17077814
Am J Med Genet B Neuropsychiatr Genet. 2010 Jun 5;153B(4):895-902
pubmed: 20052685
FEBS Lett. 1989 Sep 25;255(2):275-80
pubmed: 2477279
Nature. 1987 Apr 23-29;326(6115):760-5
pubmed: 3494949
Cell. 1996 May 17;85(4):597-605
pubmed: 8653794
Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W615-9
pubmed: 15215462
Biochim Biophys Acta Gen Subj. 2017 Jan;1861(1 Pt A):3106-3118
pubmed: 27773703
Biophys J. 2000 Mar;78(3):1606-19
pubmed: 10692345
Nat Rev Neurol. 2018 Aug;14(8):450-451
pubmed: 29915370
Nature. 1997 Aug 14;388(6643):691-3
pubmed: 9262405
Cell Rep. 2017 Jan 3;18(1):32-40
pubmed: 28052259
Biochemistry. 2003 Nov 11;42(44):13049-57
pubmed: 14596620
FEBS Lett. 2005 Jan 31;579(3):773-7
pubmed: 15670845
Proc Natl Acad Sci U S A. 1992 Aug 1;89(15):6698-702
pubmed: 1495959
Nat Struct Biol. 2001 Jun;8(6):499-504
pubmed: 11373616
Biochim Biophys Acta. 1973 Sep 27;323(1):98-112
pubmed: 4356391
J Comput Chem. 2004 Oct;25(13):1605-12
pubmed: 15264254
Life Sci. 2022 Nov 1;308:120923
pubmed: 36049529
EMBO J. 1996 Jun 3;15(11):2632-9
pubmed: 8654360
J Biol Chem. 1997 May 23;272(21):13608-13
pubmed: 9153209
Nat Genet. 2009 Oct;41(10):1088-93
pubmed: 19734902
J Histochem Cytochem. 1994 Apr;42(4):531-42
pubmed: 7510321
J Biomol NMR. 2007 Apr;37(4):321-8
pubmed: 17245526
Nat Commun. 2018 Mar 12;9(1):1029
pubmed: 29531262
J Biol Chem. 1999 Oct 29;274(44):31305-11
pubmed: 10531329
J Biol Chem. 1994 May 6;269(18):13238-43
pubmed: 7513700
J Struct Biol. 2015 Nov;192(2):216-21
pubmed: 26278980
J Biol Chem. 1994 Jun 3;269(22):15827-32
pubmed: 7515061
Nat Methods. 2017 Mar;14(3):290-296
pubmed: 28165473
Am J Physiol Renal Physiol. 2020 Dec 1;319(6):F988-F999
pubmed: 33103447
Electrophoresis. 1999 Dec;20(18):3551-67
pubmed: 10612281
Nat Genet. 2010 May;42(5):373-5
pubmed: 20383145
PLoS One. 2018 Mar 20;13(3):e0194044
pubmed: 29558500
Eur J Biochem. 1996 Jul 1;239(1):132-7
pubmed: 8706697
J Exp Med. 1983 Feb 1;157(2):667-86
pubmed: 6337231
Dev Cell. 2011 Nov 15;21(5):862-73
pubmed: 22000856
J Mol Biol. 2012 Jan 13;415(2):406-18
pubmed: 22100448
J Mol Biol. 2010 Apr 30;398(2):306-19
pubmed: 20303980
Proc Natl Acad Sci U S A. 1994 Apr 12;91(8):3161-5
pubmed: 7512726
Dev Cell. 2012 Feb 14;22(2):268-78
pubmed: 22340494
Nature. 2000 Sep 28;407(6803):530-5
pubmed: 11029007
J Am Soc Nephrol. 1999 Apr;10(4):685-95
pubmed: 10203351
J Clin Invest. 1997 Jul 15;100(2):310-20
pubmed: 9218507
Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W299-302
pubmed: 15980475
J Biol Chem. 2009 Jan 9;284(2):1313-23
pubmed: 19001363
Cell. 1990 May 4;61(3):523-34
pubmed: 2185893
Mol Cell. 2006 Apr 21;22(2):277-83
pubmed: 16630895
J Neurosci. 2005 Nov 23;25(47):10884-93
pubmed: 16306401
Acta Crystallogr D Struct Biol. 2018 Jun 1;74(Pt 6):531-544
pubmed: 29872004
Proc Natl Acad Sci U S A. 1996 Apr 30;93(9):4229-34
pubmed: 8633046
Nat Rev Mol Cell Biol. 2002 Apr;3(4):256-66
pubmed: 11994745
Am J Pathol. 2014 Jan;184(1):18-27
pubmed: 24128688
Mol Cell. 2004 Oct 22;16(2):281-92
pubmed: 15494314
Eur J Hum Genet. 2020 Aug;28(8):1066-1077
pubmed: 32238909
Clin Chim Acta. 2011 Jan 30;412(3-4):268-70
pubmed: 20971101
Nature. 2021 Aug;596(7873):583-589
pubmed: 34265844
Proc Natl Acad Sci U S A. 2000 Oct 10;97(21):11551-6
pubmed: 11016955
Birth Defects Res A Clin Mol Teratol. 2009 Jan;85(1):76-81
pubmed: 19089858
J Proteome Res. 2011 Apr 1;10(4):1794-805
pubmed: 21254760
Biochemistry. 2002 Jul 2;41(26):8263-76
pubmed: 12081475
Cell. 1995 Jul 28;82(2):331-40
pubmed: 7543026
Nature. 2000 Sep 28;407(6803):535-8
pubmed: 11029008
J Biol Chem. 2021 Jan-Jun;296:100715
pubmed: 33930462
Science. 2018 Apr 27;360(6387):423-427
pubmed: 29700264
J Biol Chem. 1988 Sep 15;263(26):13282-90
pubmed: 3417658
Protein Sci. 2021 Jan;30(1):70-82
pubmed: 32881101
Commun Biol. 2021 Jul 15;4(1):874
pubmed: 34267316
Science. 1989 Jun 9;244(4909):1163-5
pubmed: 2786251
Nat Methods. 2021 Feb;18(2):176-185
pubmed: 33542510
Neurosci Lett. 2008 Sep 12;442(2):91-5
pubmed: 18602448
Cell. 1995 Jul 14;82(1):131-41
pubmed: 7606779
In Vivo. 1994 May-Jun;8(3):343-51
pubmed: 7803716
J Lipid Res. 2010 Feb;51(2):297-308
pubmed: 19674976
Nat Protoc. 2007;2(8):1896-906
pubmed: 17703201
J Struct Biol. 2021 Jun;213(2):107702
pubmed: 33582281
J Biol Chem. 1992 May 5;267(13):9035-40
pubmed: 1374383
J Biol Chem. 1989 Sep 15;264(26):15574-7
pubmed: 2475504
EMBO J. 1995 May 15;14(10):2269-80
pubmed: 7774585
Acta Crystallogr D Biol Crystallogr. 2010 Apr;66(Pt 4):486-501
pubmed: 20383002
Exp Neurol. 1999 May;157(1):194-201
pubmed: 10222122
Am J Physiol. 1993 Jun;264(6 Pt 2):F1011-20
pubmed: 8322889
Proc Natl Acad Sci U S A. 1997 Mar 18;94(6):2368-73
pubmed: 9122201
Structure. 2010 Mar 10;18(3):366-76
pubmed: 20223219
J Mol Biol. 2006 Sep 29;362(4):700-16
pubmed: 16938309
Hum Mol Genet. 2012 Dec 15;21(24):5329-43
pubmed: 22962313
Proc Natl Acad Sci U S A. 1996 Aug 6;93(16):8460-4
pubmed: 8710893
J Biol Chem. 2013 Feb 8;288(6):4424-35
pubmed: 23275343
J Exp Med. 1987 Jul 1;166(1):109-28
pubmed: 2885390
J Cell Biol. 2013 Jul 8;202(1):113-27
pubmed: 23836931
Nucleic Acids Res. 2010 Jul;38(Web Server issue):W529-33
pubmed: 20478830
J Am Soc Nephrol. 1990 Nov;1(5):792-8
pubmed: 2133428
Mol Biol Cell. 1997 Mar;8(3):517-32
pubmed: 9188102
J Biol Chem. 2017 Jan 20;292(3):912-924
pubmed: 27956551
Acta Crystallogr D Biol Crystallogr. 2004 Dec;60(Pt 12 Pt 1):2126-32
pubmed: 15572765
Cell. 1999 Feb 19;96(4):507-15
pubmed: 10052453
J Cell Sci. 2010 Jun 1;123(Pt 11):1922-30
pubmed: 20460439
Nat Commun. 2016 May 16;7:11550
pubmed: 27180806
Virchows Arch A Pathol Anat Histopathol. 1986;408(5):541-53
pubmed: 3082068
Biochim Biophys Acta. 2007 Jun;1774(6):714-22
pubmed: 17512806
Acta Crystallogr D Struct Biol. 2019 Oct 1;75(Pt 10):861-877
pubmed: 31588918
J Histochem Cytochem. 1997 Mar;45(3):383-92
pubmed: 9071320
Nat Protoc. 2016 Dec;11(12):2301-2319
pubmed: 27809316
Glycobiology. 2000 Mar;10(3):295-304
pubmed: 10704528
J Biol Chem. 1993 Aug 5;268(22):16564-70
pubmed: 8344937
Nat Struct Mol Biol. 2011 Oct 09;18(11):1204-10
pubmed: 21984209
Acta Crystallogr D Struct Biol. 2018 Sep 1;74(Pt 9):814-840
pubmed: 30198894
J Biol Chem. 2018 May 11;293(19):7408-7422
pubmed: 29559555
Proc Natl Acad Sci U S A. 1994 Oct 11;91(21):9725-9
pubmed: 7937880
Mol Cell Neurosci. 2010 Nov;45(3):306-15
pubmed: 20637285
Mol Endocrinol. 2006 Jan;20(1):212-8
pubmed: 16099815
Am J Hum Genet. 2017 Jan 5;100(1):75-90
pubmed: 28041643
J Biol Chem. 1991 Nov 5;266(31):21232-8
pubmed: 1718973
Proc Natl Acad Sci U S A. 1982 Sep;79(18):5557-61
pubmed: 6752952
Science. 1998 Dec 11;282(5396):2012-8
pubmed: 9851916
Acta Crystallogr D Struct Biol. 2018 Jun 1;74(Pt 6):519-530
pubmed: 29872003
Nat Methods. 2022 Sep;19(9):1116-1125
pubmed: 35953671
J Clin Invest. 1995 Aug;96(2):1164-8
pubmed: 7635954
J Biol Chem. 2007 Jun 22;282(25):18602-18612
pubmed: 17452316
Physiol Rev. 2008 Jul;88(3):887-918
pubmed: 18626063
Proc Natl Acad Sci U S A. 2019 Dec 10;116(50):25196-25202
pubmed: 31740596
Nat Commun. 2016 Oct 31;7:12973
pubmed: 27796299
Am J Pathol. 1993 Nov;143(5):1423-35
pubmed: 8238258
J Neurochem. 2008 Aug;106(3):1149-59
pubmed: 18466341
Nat Methods. 2020 Dec;17(12):1214-1221
pubmed: 33257830
Nat Commun. 2020 Oct 23;11(1):5357
pubmed: 33097721
J Struct Biol. 2005 Jul;151(1):41-60
pubmed: 15890530
Nat Commun. 2016 Jan 21;7:10023
pubmed: 26831199
J Clin Invest. 1998 Sep 1;102(5):902-9
pubmed: 9727058
Biophys J. 1997 Jan;72(1):395-6
pubmed: 8994625
J Cell Sci. 2001 Mar;114(Pt 5):899-908
pubmed: 11181173
Pflugers Arch. 2017 Aug;469(7-8):907-916
pubmed: 28497274
Nat Methods. 2017 Apr;14(4):331-332
pubmed: 28250466
Proteins. 2009 Dec;77(4):940-9
pubmed: 19676115
Psychiatr Genet. 2016 Apr;26(2):66-73
pubmed: 26529358
Nature. 2020 Apr;580(7803):381-385
pubmed: 32296178
Genes Dev. 2012 Feb 1;26(3):247-58
pubmed: 22302937
Front Cell Dev Biol. 2021 May 06;9:670960
pubmed: 34026761
Nat Commun. 2013;4:1862
pubmed: 23673647
J Biol Chem. 2003 May 16;278(20):17986-92
pubmed: 12637503
Kidney Int. 2016 Jan;89(1):58-67
pubmed: 26759048
EMBO Rep. 2011 Dec 01;12(12):1300-5
pubmed: 22081141
Biochemistry. 2004 Jun 15;43(23):7328-35
pubmed: 15182176
Proc Natl Acad Sci U S A. 1993 May 15;90(10):4572-6
pubmed: 8506301
Nat Genet. 2009 Oct;41(10):1094-9
pubmed: 19734903
Bioinformatics. 2003 Jan;19(1):163-4
pubmed: 12499312
J Biol Chem. 1995 Jun 2;270(22):13070-5
pubmed: 7768901
Proc Natl Acad Sci U S A. 2008 Feb 12;105(6):1820-5
pubmed: 18250299
J Biol Chem. 1995 Aug 18;270(33):19417-21
pubmed: 7642623
J Biol Chem. 1992 Dec 25;267(36):26172-80
pubmed: 1464627
Biochemistry. 2010 Feb 16;49(6):1207-16
pubmed: 20030366
Annu Rev Biochem. 2005;74:535-62
pubmed: 15952897
J Am Soc Nephrol. 2013 Dec;24(12):2105-17
pubmed: 24029420
J Biol Chem. 2004 Jul 16;279(29):30611-21
pubmed: 15100232
J Cell Biol. 1990 Apr;110(4):1041-8
pubmed: 1691187
J Synchrotron Radiat. 2004 Jan 1;11(Pt 1):53-5
pubmed: 14646133
Nat Genet. 2007 Aug;39(8):957-9
pubmed: 17632512
J Struct Biol. 2012 Dec;180(3):519-30
pubmed: 23000701

Auteurs

Andrew Beenken (A)

Division of Nephrology, Department of Medicine, Columbia University Vagelos College of Physicians and Surgeons, New York, NY 10032, USA.

Gabriele Cerutti (G)

Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY 10027, USA.

Julia Brasch (J)

Department of Biochemistry, University of Utah, Salt Lake City, UT 84112, USA.

Yicheng Guo (Y)

Aaron Diamond AIDS Research Center, Columbia University, New York, NY 10032, USA.

Zizhang Sheng (Z)

Aaron Diamond AIDS Research Center, Columbia University, New York, NY 10032, USA.

Hediye Erdjument-Bromage (H)

Department of Cell Biology, New York University Grossman School of Medicine, New York, NY 10016, USA.

Zainab Aziz (Z)

Vagelos College of Physicians and Surgeons, Columbia University, New York, NY 10032, USA.

Shelief Y Robbins-Juarez (SY)

Department of Medicine, Duke University Medical Center, Durham, NC 27710, USA.

Estefania Y Chavez (EY)

Department of Pediatrics, Columbia University College of Physicians and Surgeons, New York, NY 10032, USA.

Goran Ahlsen (G)

Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY 10027, USA.

Phinikoula S Katsamba (PS)

Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY 10027, USA.

Thomas A Neubert (TA)

Department of Cell Biology, New York University Grossman School of Medicine, New York, NY 10016, USA.

Anthony W P Fitzpatrick (AWP)

Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY 10027, USA; Department of Biochemistry and Molecular Biophysics, Columbia University Vagelos College of Physicians and Surgeons, New York, NY 10032, USA; Taub Institute for Research on Alzheimer's Disease and the Aging Brain, Columbia University Irving Medical Center, New York, NY 10032, USA. Electronic address: anthony.fitzpatrick@columbia.edu.

Jonathan Barasch (J)

Division of Nephrology, Department of Medicine, Columbia University Vagelos College of Physicians and Surgeons, New York, NY 10032, USA; Department of Pathology and Cell Biology, Columbia University Vagelos College of Physicians and Surgeons, New York, NY 10032, USA; Columbia University George M. O'Brien Urology Center, New York, NY 10032, USA. Electronic address: jmb4@columbia.edu.

Lawrence Shapiro (L)

Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY 10027, USA; Aaron Diamond AIDS Research Center, Columbia University, New York, NY 10032, USA; Department of Biochemistry and Molecular Biophysics, Columbia University Vagelos College of Physicians and Surgeons, New York, NY 10032, USA. Electronic address: lss8@columbia.edu.

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