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2xku

From Proteopedia

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Prion-like conversion during amyloid formation at atomic resolution

Structural highlights

2xku is a 1 chain structure with sequence from Homo sapiens. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Disease

B2MG_HUMAN Defects in B2M are the cause of hypercatabolic hypoproteinemia (HYCATHYP) [MIM:241600. Affected individuals show marked reduction in serum concentrations of immunoglobulin and albumin, probably due to rapid degradation.^[1] Note=Beta-2-microglobulin may adopt the fibrillar configuration of amyloid in certain pathologic states. The capacity to assemble into amyloid fibrils is concentration dependent. Persistently high beta(2)-microglobulin serum levels lead to amyloidosis in patients on long-term hemodialysis.^[2] ^[3] ^[4] ^[5] ^[6] ^[7] ^[8] ^[9] ^[10] ^[11] ^[12] ^[13] ^[14]

Function

B2MG_HUMAN Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.

Publication Abstract from PubMed

Numerous studies of amyloid assembly have indicated that partially folded protein species are responsible for initiating aggregation. Despite their importance, the structural and dynamic features of amyloidogenic intermediates and the molecular details of how they cause aggregation remain elusive. Here, we use DeltaN6, a truncation variant of the naturally amyloidogenic protein beta(2)-microglobulin (beta(2)m), to determine the solution structure of a nonnative amyloidogenic intermediate at high resolution. The structure of DeltaN6 reveals a major repacking of the hydrophobic core to accommodate the nonnative peptidyl-prolyl trans-isomer at Pro32. These structural changes, together with a concomitant pH-dependent enhancement in backbone dynamics on a microsecond-millisecond timescale, give rise to a rare conformer with increased amyloidogenic potential. We further reveal that catalytic amounts of DeltaN6 are competent to convert nonamyloidogenic human wild-type beta(2)m (Hbeta(2)m) into a rare amyloidogenic conformation and provide structural evidence for the mechanism by which this conformational conversion occurs.

Conformational Conversion during Amyloid Formation at Atomic Resolution.,Eichner T, Kalverda AP, Thompson GS, Homans SW, Radford SE Mol Cell. 2011 Jan 21;41(2):161-72. PMID:21255727^[15]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Wani MA, Haynes LD, Kim J, Bronson CL, Chaudhury C, Mohanty S, Waldmann TA, Robinson JM, Anderson CL. Familial hypercatabolic hypoproteinemia caused by deficiency of the neonatal Fc receptor, FcRn, due to a mutant beta2-microglobulin gene. Proc Natl Acad Sci U S A. 2006 Mar 28;103(13):5084-9. Epub 2006 Mar 20. PMID:16549777 doi:10.1073/pnas.0600548103
↑ Gorevic PD, Munoz PC, Casey TT, DiRaimondo CR, Stone WJ, Prelli FC, Rodrigues MM, Poulik MD, Frangione B. Polymerization of intact beta 2-microglobulin in tissue causes amyloidosis in patients on chronic hemodialysis. Proc Natl Acad Sci U S A. 1986 Oct;83(20):7908-12. PMID:3532124
↑ Argiles A, Derancourt J, Jauregui-Adell J, Mion C, Demaille JG. Biochemical characterization of serum and urinary beta 2 microglobulin in end-stage renal disease patients. Nephrol Dial Transplant. 1992;7(11):1106-10. PMID:1336137
↑ Momoi T, Suzuki M, Titani K, Hisanaga S, Ogawa H, Saito A. Amino acid sequence of a modified beta 2-microglobulin in renal failure patient urine and long-term dialysis patient blood. Clin Chim Acta. 1995 May 15;236(2):135-44. PMID:7554280
↑ Cunningham BA, Wang JL, Berggard I, Peterson PA. The complete amino acid sequence of beta 2-microglobulin. Biochemistry. 1973 Nov 20;12(24):4811-22. PMID:4586824
↑ Haag-Weber M, Mai B, Horl WH. Isolation of a granulocyte inhibitory protein from uraemic patients with homology of beta 2-microglobulin. Nephrol Dial Transplant. 1994;9(4):382-8. PMID:8084451
↑ Trinh CH, Smith DP, Kalverda AP, Phillips SE, Radford SE. Crystal structure of monomeric human beta-2-microglobulin reveals clues to its amyloidogenic properties. Proc Natl Acad Sci U S A. 2002 Jul 23;99(15):9771-6. Epub 2002 Jul 15. PMID:12119416 doi:10.1073/pnas.152337399
↑ Stewart-Jones GB, McMichael AJ, Bell JI, Stuart DI, Jones EY. A structural basis for immunodominant human T cell receptor recognition. Nat Immunol. 2003 Jul;4(7):657-63. Epub 2003 Jun 8. PMID:12796775 doi:10.1038/ni942
↑ Kihara M, Chatani E, Iwata K, Yamamoto K, Matsuura T, Nakagawa A, Naiki H, Goto Y. Conformation of amyloid fibrils of beta2-microglobulin probed by tryptophan mutagenesis. J Biol Chem. 2006 Oct 13;281(41):31061-9. Epub 2006 Aug 10. PMID:16901902 doi:10.1074/jbc.M605358200
↑ Eakin CM, Berman AJ, Miranker AD. A native to amyloidogenic transition regulated by a backbone trigger. Nat Struct Mol Biol. 2006 Mar;13(3):202-8. Epub 2006 Feb 19. PMID:16491088 doi:10.1038/nsmb1068
↑ Iwata K, Matsuura T, Sakurai K, Nakagawa A, Goto Y. High-resolution crystal structure of beta2-microglobulin formed at pH 7.0. J Biochem. 2007 Sep;142(3):413-9. Epub 2007 Jul 23. PMID:17646174 doi:10.1093/jb/mvm148
↑ Ricagno S, Colombo M, de Rosa M, Sangiovanni E, Giorgetti S, Raimondi S, Bellotti V, Bolognesi M. DE loop mutations affect beta2-microglobulin stability and amyloid aggregation. Biochem Biophys Res Commun. 2008 Dec 5;377(1):146-50. Epub 2008 Oct 1. PMID:18835253 doi:S0006-291X(08)01866-4
↑ Esposito G, Ricagno S, Corazza A, Rennella E, Gumral D, Mimmi MC, Betto E, Pucillo CE, Fogolari F, Viglino P, Raimondi S, Giorgetti S, Bolognesi B, Merlini G, Stoppini M, Bolognesi M, Bellotti V. The controlling roles of Trp60 and Trp95 in beta2-microglobulin function, folding and amyloid aggregation properties. J Mol Biol. 2008 May 9;378(4):887-97. Epub 2008 Mar 8. PMID:18395224 doi:10.1016/j.jmb.2008.03.002
↑ Ricagno S, Raimondi S, Giorgetti S, Bellotti V, Bolognesi M. Human beta-2 microglobulin W60V mutant structure: Implications for stability and amyloid aggregation. Biochem Biophys Res Commun. 2009 Mar 13;380(3):543-7. Epub 2009 Jan 25. PMID:19284997 doi:10.1016/j.bbrc.2009.01.116
↑ Eichner T, Kalverda AP, Thompson GS, Homans SW, Radford SE. Conformational Conversion during Amyloid Formation at Atomic Resolution. Mol Cell. 2011 Jan 21;41(2):161-72. PMID:21255727 doi:10.1016/j.molcel.2010.11.028

1 Structural highlights
2 Disease
3 Function
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2xku"

@@ Line 1: / Line 1: @@
 ==Prion-like conversion during amyloid formation at atomic resolution==
-<StructureSection load='2xku' size='340' side='right'caption='[[2xku]], [[NMR_Ensembles_of_Models | 30 NMR models]]' scene=''>
+<StructureSection load='2xku' size='340' side='right'caption='[[2xku]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2xku]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XKU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XKU FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2xku]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XKU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XKU FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1uqs|1uqs]], [[1bd2|1bd2]], [[2esv|2esv]], [[2ak4|2ak4]], [[1ypz|1ypz]], [[1im3|1im3]], [[1i7u|1i7u]], [[1uxw|1uxw]], [[1c16|1c16]], [[1hsa|1hsa]], [[2bnq|2bnq]], [[1gzp|1gzp]], [[2axf|2axf]], [[1w72|1w72]], [[2jcc|2jcc]], [[2bck|2bck]], [[1de4|1de4]], [[2vlk|2vlk]], [[1exu|1exu]], [[1qrn|1qrn]], [[2hla|2hla]], [[1mhe|1mhe]], [[1im9|1im9]], [[1eez|1eez]], [[1jht|1jht]], [[1qqd|1qqd]], [[1qr1|1qr1]], [[1zs8|1zs8]], [[1hla|1hla]], [[1i1y|1i1y]], [[1jgd|1jgd]], [[1vgk|1vgk]], [[1ur7|1ur7]], [[1age|1age]], [[2x89|2x89]], [[1hhg|1hhg]], [[1s9x|1s9x]], [[1a9e|1a9e]], [[1duz|1duz]], [[2x4u|2x4u]], [[2clr|2clr]], [[3hla|3hla]], [[2x4o|2x4o]], [[1m05|1m05]], [[1tvb|1tvb]], [[2v2w|2v2w]], [[1onq|1onq]], [[2vlr|2vlr]], [[2x4p|2x4p]], [[2bvo|2bvo]], [[1a1n|1a1n]], [[1lp9|1lp9]], [[1zsd|1zsd]], [[1m6o|1m6o]], [[1hhk|1hhk]], [[1hsb|1hsb]], [[1zt4|1zt4]], [[1x7q|1x7q]], [[1ce6|1ce6]], [[1py4|1py4]], [[2j8u|2j8u]], [[1syv|1syv]], [[1sys|1sys]], [[1ogt|1ogt]], [[2x4t|2x4t]], [[1cg9|1cg9]], [[1p7q|1p7q]], [[1q94|1q94]], [[1jnj|1jnj]], [[1agb|1agb]], [[2d31|2d31]], [[1xz0|1xz0]], [[1lds|1lds]], [[1tvh|1tvh]], [[1hhh|1hhh]], [[1xr8|1xr8]], [[2bss|2bss]], [[1a1m|1a1m]], [[1e28|1e28]], [[2bvp|2bvp]], [[1xr9|1xr9]], [[2v2x|2v2x]], [[2gj6|2gj6]], [[2x4r|2x4r]], [[1efx|1efx]], [[1qlf|1qlf]], [[1tmc|1tmc]], [[2av1|2av1]], [[1qsf|1qsf]], [[1duy|1duy]], [[1jge|1jge]], [[1kpr|1kpr]], [[2hjl|2hjl]], [[1qew|1qew]], [[1w0v|1w0v]], [[1k5n|1k5n]], [[1ao7|1ao7]], [[2bnr|2bnr]], [[1xh3|1xh3]], [[2bst|2bst]], [[1mi5|1mi5]], [[2h26|2h26]], [[1a1o|1a1o]], [[1s9y|1s9y]], [[2a83|2a83]], [[1agf|1agf]], [[1oga|1oga]], [[2f8o|2f8o]], [[2x70|2x70]], [[2cii|2cii]], [[1i7r|1i7r]], [[1jf1|1jf1]], [[2c7u|2c7u]], [[1e27|1e27]], [[2f74|2f74]], [[1w0w|1w0w]], [[1gzq|1gzq]], [[1uxs|1uxs]], [[1akj|1akj]], [[2hjk|2hjk]], [[2vb5|2vb5]], [[1r3h|1r3h]], [[1agd|1agd]], [[2x4n|2x4n]], [[1eey|1eey]], [[1i7t|1i7t]], [[1ydp|1ydp]], [[1i4f|1i4f]], [[2vll|2vll]], [[2bsr|2bsr]], [[1b0r|1b0r]], [[2vlj|2vlj]], [[2x4s|2x4s]], [[1of2|1of2]], [[1b0g|1b0g]], [[1hhi|1hhi]], [[1qse|1qse]], [[1a9b|1a9b]], [[2axg|2axg]], [[2bvq|2bvq]], [[1agc|1agc]], [[1qvo|1qvo]], [[1hhj|1hhj]], [[1s9w|1s9w]], [[1ktl|1ktl]], [[1a6z|1a6z]], [[2cik|2cik]], [[1i1f|1i1f]], [[2uwe|2uwe]], [[2av7|2av7]], [[2xkt|2xkt]], [[2xks|2xks]]</td></tr>
+</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2xku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xku OCA], [https://pdbe.org/2xku PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xku RCSB], [https://www.ebi.ac.uk/pdbsum/2xku PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xku ProSAT]</span></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2xku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xku OCA], [http://pdbe.org/2xku PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xku RCSB], [http://www.ebi.ac.uk/pdbsum/2xku PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xku ProSAT]</span></td></tr>
 </table>
 == Disease ==
-[[http://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN]] Defects in B2M are the cause of hypercatabolic hypoproteinemia (HYCATHYP) [MIM:[http://omim.org/entry/241600 241600]]. Affected individuals show marked reduction in serum concentrations of immunoglobulin and albumin, probably due to rapid degradation.<ref>PMID:16549777</ref>   Note=Beta-2-microglobulin may adopt the fibrillar configuration of amyloid in certain pathologic states. The capacity to assemble into amyloid fibrils is concentration dependent. Persistently high beta(2)-microglobulin serum levels lead to amyloidosis in patients on long-term hemodialysis.<ref>PMID:3532124</ref> <ref>PMID:1336137</ref> <ref>PMID:7554280</ref> <ref>PMID:4586824</ref> <ref>PMID:8084451</ref> <ref>PMID:12119416</ref> <ref>PMID:12796775</ref> <ref>PMID:16901902</ref> <ref>PMID:16491088</ref> <ref>PMID:17646174</ref> <ref>PMID:18835253</ref> <ref>PMID:18395224</ref> <ref>PMID:19284997</ref>
+[https://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN] Defects in B2M are the cause of hypercatabolic hypoproteinemia (HYCATHYP) [MIM:[https://omim.org/entry/241600 241600]. Affected individuals show marked reduction in serum concentrations of immunoglobulin and albumin, probably due to rapid degradation.<ref>PMID:16549777</ref>   Note=Beta-2-microglobulin may adopt the fibrillar configuration of amyloid in certain pathologic states. The capacity to assemble into amyloid fibrils is concentration dependent. Persistently high beta(2)-microglobulin serum levels lead to amyloidosis in patients on long-term hemodialysis.<ref>PMID:3532124</ref> <ref>PMID:1336137</ref> <ref>PMID:7554280</ref> <ref>PMID:4586824</ref> <ref>PMID:8084451</ref> <ref>PMID:12119416</ref> <ref>PMID:12796775</ref> <ref>PMID:16901902</ref> <ref>PMID:16491088</ref> <ref>PMID:17646174</ref> <ref>PMID:18835253</ref> <ref>PMID:18395224</ref> <ref>PMID:19284997</ref>
 == Function ==
-[[http://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN]] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.
+[https://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 27: / Line 26: @@
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
 [[Category: Large Structures]]
-[[Category: Eichner, T]]
+[[Category: Eichner T]]
-[[Category: Homans, S W]]
+[[Category: Homans SW]]
-[[Category: Kalverda, A P]]
+[[Category: Kalverda AP]]
-[[Category: Radford, S E]]
+[[Category: Radford SE]]
-[[Category: Thompson, G S]]
+[[Category: Thompson GS]]
-[[Category: Amyloidosis]]
-[[Category: Ig-domain]]
-[[Category: Immune system]]

2xku

From Proteopedia

Current revision

Prion-like conversion during amyloid formation at atomic resolution

Structural highlights

Disease

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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