6mun: Difference between revisions

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 ==Structure of hRpn10 bound to UBQLN2 UBL==
-<StructureSection load='6mun' size='340' side='right'caption='[[6mun]], [[NMR_Ensembles_of_Models | 10 NMR models]]' scene=''>
+<StructureSection load='6mun' size='340' side='right'caption='[[6mun]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6mun]] is a 3 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=6MUN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MUN FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6mun]] is a 3 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=6MUN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6MUN FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1yx4|1yx4]], [[1yx5|1yx5]], [[1yx6|1yx6]], [[1j8c|1j8c]], [[2kde|2kde]], [[2kdf|2kdf]]</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PSMD4, MCB1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN]), UBQLN2, N4BP4, PLIC2, HRIHFB2157 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=6mun FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mun OCA], [https://pdbe.org/6mun PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6mun RCSB], [https://www.ebi.ac.uk/pdbsum/6mun PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6mun 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=6mun FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mun OCA], [http://pdbe.org/6mun PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mun RCSB], [http://www.ebi.ac.uk/pdbsum/6mun PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mun ProSAT]</span></td></tr>
 </table>
-== Disease ==
-[[http://www.uniprot.org/uniprot/UBQL2_HUMAN UBQL2_HUMAN]] Defects in UBQLN2 are the cause of amyotrophic lateral sclerosis type 15 with or without frontotemporal dementia (ALS15) [MIM:[http://omim.org/entry/300857 300857]]. A neurodegenerative disorder affecting upper motor neurons in the brain and lower motor neurons in the brain stem and spinal cord, resulting in fatal paralysis. Sensory abnormalities are absent. The pathologic hallmarks of the disease include pallor of the corticospinal tract due to loss of motor neurons, presence of ubiquitin-positive inclusions within surviving motor neurons, and deposition of pathologic aggregates. The etiology of amyotrophic lateral sclerosis is likely to be multifactorial, involving both genetic and environmental factors. The disease is inherited in 5-10% of the cases. Patients with ALS15 may develop frontotemporal dementia.<ref>PMID:21857683</ref> <ref>PMID:22892309</ref> <ref>PMID:22717235</ref> <ref>PMID:22560112</ref>
 == Function ==
-[[http://www.uniprot.org/uniprot/PSMD4_HUMAN PSMD4_HUMAN]] Binds and presumably selects ubiquitin-conjugates for destruction. Displays selectivity for longer polyubiquitin chains. Modulates intestinal fluid secretion. [[http://www.uniprot.org/uniprot/UBQL2_HUMAN UBQL2_HUMAN]] Increases the half-life of proteins destined to be degraded by the proteasome; may modulate proteasome-mediated protein degradation.<ref>PMID:10983987</ref>
+[https://www.uniprot.org/uniprot/PSMD4_HUMAN PSMD4_HUMAN] Binds and presumably selects ubiquitin-conjugates for destruction. Displays selectivity for longer polyubiquitin chains. Modulates intestinal fluid secretion.
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-The 26S proteasome is a highly complex 2.5-MDa molecular machine responsible for regulated protein degradation. Proteasome substrates are typically marked by ubiquitination for recognition at receptor sites contributed by Rpn1/S2/PSMD2, Rpn10/S5a, and Rpn13/Adrm1. Each receptor site can bind substrates directly by engaging conjugated ubiquitin chains or indirectly by binding to shuttle factors Rad23/HR23, Dsk2/PLIC/UBQLN, or Ddi1, which contain a ubiquitin-like domain (UBL) that adopts the ubiquitin fold. Previous structural studies have defined how each of the proteasome receptor sites binds to ubiquitin chains as well as some of the interactions that occur with the shuttle factors. Here, we define how hRpn10 binds to the UBQLN2 UBL domain, solving the structure of this complex by NMR, and determine affinities for each UIM region by a titration experiment. UBQLN2 UBL exhibits 25-fold stronger affinity for the N-terminal UIM-1 over UIM-2 of hRpn10. Moreover, we discover that UBQLN2 UBL is fine-tuned for the hRpn10 UIM-1 site over the UIM-2 site by taking advantage of the additional contacts made available through the longer UIM-1 helix. We also test hRpn10 versatility for the various ubiquitin chains to find less specificity for any particular linkage type compared to hRpn1 and hRpn13, as expected from the flexible linker region that connects the two UIMs; nonetheless, hRpn10 does exhibit some preference for K48 and K11 linkages. Altogether, these results provide new insights into the highly complex and complementary roles of the proteasome receptor sites and shuttle factors.
-Structure of hRpn10 Bound to UBQLN2 UBL Illustrates Basis for Complementarity between Shuttle Factors and Substrates at the Proteasome.,Chen X, Ebelle DL, Wright BJ, Sridharan V, Hooper E, Walters KJ J Mol Biol. 2019 Mar 1;431(5):939-955. doi: 10.1016/j.jmb.2019.01.021. Epub 2019 , Jan 18. PMID:30664872<ref>PMID:30664872</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 6mun" style="background-color:#fffaf0;"></div>
 ==See Also==
 *[[Proteasome 3D structures|Proteasome 3D structures]]
-== References ==
-<references/>
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
 [[Category: Large Structures]]
-[[Category: Chen, X]]
+[[Category: Chen X]]
-[[Category: Walters, K J]]
+[[Category: Walters KJ]]
-[[Category: Complex]]
-[[Category: Proteasome]]
-[[Category: Shuttle factor]]
-[[Category: Structural protein]]