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2cii

From Proteopedia

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Revision as of 06:37, 31 January 2018

The crystal structure of H-2Db complexed with a partial peptide epitope suggests an MHC Class I assembly-intermediate

Structural highlights

2cii is a 3 chain structure with sequence from Human and Lk3 transgenic mice. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Related:	1a1m, 1a1n, 1a1o, 1a6z, 1a9b, 1a9e, 1agb, 1agc, 1agd, 1age, 1agf, 1akj, 1ao7, 1b0g, 1b0r, 1bd2, 1bz9, 1c16, 1ce6, 1cg9, 1de4, 1duy, 1duz, 1e27, 1e28, 1eey, 1eez, 1efx, 1exu, 1ffn, 1ffo, 1ffp, 1fg2, 1gzp, 1gzq, 1hoc, 1hhg, 1hhh, 1hhi, 1hhj, 1hhk, 1hla, 1hsa, 1hsb, 1i1f, 1i1y, 1i4f, 1i7r, 1i7t, 1i7u, 1im3, 1im9, 1inq, 1jf1, 1jgd, 1jge, 1jht, 1jnj, 1jpf, 1jpg, 1juf, 1k5n, 1kpr, 1ktl, 1lds, 1lp9, 1m05, 1m6o, 1mhe, 1mi5, 1n2r, 1n3n, 1n5a, 1of2, 1oga, 1ogt, 1onq, 1p7q, 1py4, 1q94, 1qew, 1qlf, 1qqd, 1qr1, 1qrn, 1qse, 1qsf, 1qvo, 1r3h, 1s7u, 1s7v, 1s7w, 1s7x, 1s9w, 1s9x, 1s9y, 1sys, 1syv, 1tmc, 1tvb, 1tvh, 1uqs, 1ur7, 1uxs, 1uxw, 1vgk, 1w0v, 1w0w, 1w72, 1wbx, 1wby, 1x7q, 1xh3, 1xr8, 1xr9, 1xz0, 1yn6, 1yn7, 1ydp, 1ypz, 1zhb, 1zs8, 1zsd, 1zt4, 2a83, 2ak4, 2av7, 2axf, 2axg, 2bck, 2bnq, 2bnr, 2bsr, 2bss, 2bst, 2bsu, 2bsv, 2bvq, 2c7u, 2cik, 2clr, 2d31, 2f74, 2f8o, 2hla, 3hla
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

[HA11_MOUSE] Involved in the presentation of foreign antigens to the immune system. [NCAP_PI1HW] Encapsidates the genome in a ratio of 1 N per 6 ribonucleotides, protecting it from nucleases. The nucleocapsid (NC) has a helical structure. The encapsidated genomic RNA is termed the NC and serves as template for transcription and replication. During replication, encapsidation by N is coupled to RNA synthesis and all replicative products are resistant to nucleases (By similarity). [B2MG_HUMAN] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

In the absence of bound peptide ligands, major histocompatibility complex (MHC) class I molecules are unstable. In an attempt to determine the minimum requirement for peptide-dependent MHC class I stabilization, we have used short synthetic peptides derived from the Sendai virus nucleoprotein epitope (residues 324-332, 1FAPGNYPAL9) to promote its folding in vitro of H-2D(b). We found that H-2D(b) can be stabilized by the pentapeptide 5NYPAL9, which is equivalent to the C-terminal portion of the optimal nonapeptide and includes both the P5 and P9 anchor residues. We have crystallized the complex of the H-2D(b) molecule with the pentamer and determined the structure to show how a quasi-stable MHC class I molecule can be formed by occupancy of a single binding pocket in the peptide-binding groove.

The crystal structure of H-2D(b) complexed with a partial peptide epitope suggests a major histocompatibility complex class I assembly intermediate.,Glithero A, Tormo J, Doering K, Kojima M, Jones EY, Elliott T J Biol Chem. 2006 May 5;281(18):12699-704. Epub 2006 Feb 14. PMID:16478731^[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
↑ Glithero A, Tormo J, Doering K, Kojima M, Jones EY, Elliott T. The crystal structure of H-2D(b) complexed with a partial peptide epitope suggests a major histocompatibility complex class I assembly intermediate. J Biol Chem. 2006 May 5;281(18):12699-704. Epub 2006 Feb 14. PMID:16478731 doi:10.1074/jbc.M511683200

1 Structural highlights
2 Disease
3 Function
4 Evolutionary Conservation
5 Publication Abstract from PubMed
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

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

@@ Line 1: / Line 1: @@
-==THE CRYSTAL STRUCTURE OF H-2DB COMPLEXED WITH A PARTIAL PEPTIDE EPITOPE SUGGESTS AN MHC CLASS I ASSEMBLY-INTERMEDIATE==
+==The crystal structure of H-2Db complexed with a partial peptide epitope suggests an MHC Class I assembly-intermediate==
 <StructureSection load='2cii' size='340' side='right' caption='[[2cii]], [[Resolution|resolution]] 2.55&Aring;' scene=''>
 == Structural highlights ==
@@ Line 5: / Line 6: @@
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1a1m|1a1m]], [[1a1n|1a1n]], [[1a1o|1a1o]], [[1a6z|1a6z]], [[1a9b|1a9b]], [[1a9e|1a9e]], [[1agb|1agb]], [[1agc|1agc]], [[1agd|1agd]], [[1age|1age]], [[1agf|1agf]], [[1akj|1akj]], [[1ao7|1ao7]], [[1b0g|1b0g]], [[1b0r|1b0r]], [[1bd2|1bd2]], [[1bz9|1bz9]], [[1c16|1c16]], [[1ce6|1ce6]], [[1cg9|1cg9]], [[1de4|1de4]], [[1duy|1duy]], [[1duz|1duz]], [[1e27|1e27]], [[1e28|1e28]], [[1eey|1eey]], [[1eez|1eez]], [[1efx|1efx]], [[1exu|1exu]], [[1ffn|1ffn]], [[1ffo|1ffo]], [[1ffp|1ffp]], [[1fg2|1fg2]], [[1gzp|1gzp]], [[1gzq|1gzq]], [[1hoc|1hoc]], [[1hhg|1hhg]], [[1hhh|1hhh]], [[1hhi|1hhi]], [[1hhj|1hhj]], [[1hhk|1hhk]], [[1hla|1hla]], [[1hsa|1hsa]], [[1hsb|1hsb]], [[1i1f|1i1f]], [[1i1y|1i1y]], [[1i4f|1i4f]], [[1i7r|1i7r]], [[1i7t|1i7t]], [[1i7u|1i7u]], [[1im3|1im3]], [[1im9|1im9]], [[1inq|1inq]], [[1jf1|1jf1]], [[1jgd|1jgd]], [[1jge|1jge]], [[1jht|1jht]], [[1jnj|1jnj]], [[1jpf|1jpf]], [[1jpg|1jpg]], [[1juf|1juf]], [[1k5n|1k5n]], [[1kpr|1kpr]], [[1ktl|1ktl]], [[1lds|1lds]], [[1lp9|1lp9]], [[1m05|1m05]], [[1m6o|1m6o]], [[1mhe|1mhe]], [[1mi5|1mi5]], [[1n2r|1n2r]], [[1n3n|1n3n]], [[1n5a|1n5a]], [[1of2|1of2]], [[1oga|1oga]], [[1ogt|1ogt]], [[1onq|1onq]], [[1p7q|1p7q]], [[1py4|1py4]], [[1q94|1q94]], [[1qew|1qew]], [[1qlf|1qlf]], [[1qqd|1qqd]], [[1qr1|1qr1]], [[1qrn|1qrn]], [[1qse|1qse]], [[1qsf|1qsf]], [[1qvo|1qvo]], [[1r3h|1r3h]], [[1s7u|1s7u]], [[1s7v|1s7v]], [[1s7w|1s7w]], [[1s7x|1s7x]], [[1s9w|1s9w]], [[1s9x|1s9x]], [[1s9y|1s9y]], [[1sys|1sys]], [[1syv|1syv]], [[1tmc|1tmc]], [[1tvb|1tvb]], [[1tvh|1tvh]], [[1uqs|1uqs]], [[1ur7|1ur7]], [[1uxs|1uxs]], [[1uxw|1uxw]], [[1vgk|1vgk]], [[1w0v|1w0v]], [[1w0w|1w0w]], [[1w72|1w72]], [[1wbx|1wbx]], [[1wby|1wby]], [[1x7q|1x7q]], [[1xh3|1xh3]], [[1xr8|1xr8]], [[1xr9|1xr9]], [[1xz0|1xz0]], [[1yn6|1yn6]], [[1yn7|1yn7]], [[1ydp|1ydp]], [[1ypz|1ypz]], [[1zhb|1zhb]], [[1zs8|1zs8]], [[1zsd|1zsd]], [[1zt4|1zt4]], [[2a83|2a83]], [[2ak4|2ak4]], [[2av7|2av7]], [[2axf|2axf]], [[2axg|2axg]], [[2bck|2bck]], [[2bnq|2bnq]], [[2bnr|2bnr]], [[2bsr|2bsr]], [[2bss|2bss]], [[2bst|2bst]], [[2bsu|2bsu]], [[2bsv|2bsv]], [[2bvq|2bvq]], [[2c7u|2c7u]], [[2cik|2cik]], [[2clr|2clr]], [[2d31|2d31]], [[2f74|2f74]], [[2f8o|2f8o]], [[2hla|2hla]], [[3hla|3hla]]</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=2cii FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cii OCA], [http://pdbe.org/2cii PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2cii RCSB], [http://www.ebi.ac.uk/pdbsum/2cii PDBsum]</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=2cii FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cii OCA], [http://pdbe.org/2cii PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2cii RCSB], [http://www.ebi.ac.uk/pdbsum/2cii PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2cii ProSAT]</span></td></tr>
 </table>
 == Disease ==
@@ Line 15: / Line 16: @@
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ci/2cii_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ci/2cii_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 30: / Line 31: @@
 </div>
 <div class="pdbe-citations 2cii" style="background-color:#fffaf0;"></div>
-==See Also==
-*[[Beta-2 microglobulin|Beta-2 microglobulin]]
-*[[Major histocompatibility complex|Major histocompatibility complex]]
 == References ==
 <references/>

2cii

From Proteopedia

Revision as of 06:37, 31 January 2018

The crystal structure of H-2Db complexed with a partial peptide epitope suggests an MHC Class I assembly-intermediate

Structural highlights

Disease

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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