3u3v: Difference between revisions
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<StructureSection load='3u3v' size='340' side='right'caption='[[3u3v]], [[Resolution|resolution]] 2.96Å' scene=''> | <StructureSection load='3u3v' size='340' side='right'caption='[[3u3v]], [[Resolution|resolution]] 2.96Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3u3v]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/ | <table><tr><td colspan='2'>[[3u3v]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3U3V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3U3V FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.96Å</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=3u3v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3u3v OCA], [https://pdbe.org/3u3v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3u3v RCSB], [https://www.ebi.ac.uk/pdbsum/3u3v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3u3v ProSAT]</span></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=3u3v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3u3v OCA], [https://pdbe.org/3u3v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3u3v RCSB], [https://www.ebi.ac.uk/pdbsum/3u3v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3u3v ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | == Function == | ||
[https://www.uniprot.org/uniprot/TNR21_HUMAN TNR21_HUMAN] May activate NF-kappa-B and promote apoptosis. May activate JNK and be involved in T-cell differentiation. Required for both normal cell body death and axonal pruning. Trophic-factor deprivation triggers the cleavage of surface APP by beta-secretase to release sAPP-beta which is further cleaved to release an N-terminal fragment of APP (N-APP). N-APP binds TNFRSF21 triggering caspase activation and degeneration of both neuronal cell bodies (via caspase-3) and axons (via caspase-6). | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: | [[Category: Homo sapiens]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Ding | [[Category: Ding W]] | ||
[[Category: Hung | [[Category: Hung LW]] | ||
[[Category: Jiao | [[Category: Jiao LY]] | ||
[[Category: Liu | [[Category: Liu ZJ]] | ||
[[Category: Matsugaki | [[Category: Matsugaki N]] | ||
[[Category: Ru | [[Category: Ru H]] | ||
[[Category: Shaw | [[Category: Shaw N]] | ||
[[Category: Wakatsuki | [[Category: Wakatsuki S]] | ||
[[Category: Zhang | [[Category: Zhang LG]] | ||
[[Category: Zhao | [[Category: Zhao LX]] | ||
Latest revision as of 13:30, 6 November 2024
The S-SAD phased crystal structure of the ecto-domain of Death Receptor 6 (DR6)The S-SAD phased crystal structure of the ecto-domain of Death Receptor 6 (DR6)
Structural highlights
FunctionTNR21_HUMAN May activate NF-kappa-B and promote apoptosis. May activate JNK and be involved in T-cell differentiation. Required for both normal cell body death and axonal pruning. Trophic-factor deprivation triggers the cleavage of surface APP by beta-secretase to release sAPP-beta which is further cleaved to release an N-terminal fragment of APP (N-APP). N-APP binds TNFRSF21 triggering caspase activation and degeneration of both neuronal cell bodies (via caspase-3) and axons (via caspase-6). Publication Abstract from PubMedA subset of tumour necrosis factor receptor (TNFR) superfamily members contain death domains in their cytoplasmic tails. Death receptor 6 (DR6) is one such member and can trigger apoptosis upon the binding of a ligand by its cysteine-rich domains (CRDs). The crystal structure of the ectodomain (amino acids 1-348) of human death receptor 6 (DR6) encompassing the CRD region was phased using the anomalous signal from S atoms. In order to explore the feasibility of S-SAD phasing at longer wavelengths (beyond 2.5 A), a comparative study was performed on data collected at wavelengths of 2.0 and 2.7 A. In spite of sub-optimal experimental conditions, the 2.7 A wavelength used for data collection showed potential for S-SAD phasing. The results showed that the R(ano)/R(p.i.m.) ratio is a good indicator for monitoring the anomalous data quality when the anomalous signal is relatively strong, while d/sig(d) calculated by SHELXC is a more sensitive and stable indicator applicable for grading a wider range of anomalous data qualities. The use of the `parameter-space screening method' for S-SAD phasing resulted in solutions for data sets that failed during manual attempts. SAXS measurements on the ectodomain suggested that a dimer defines the minimal physical unit of an unliganded DR6 molecule in solution. S-SAD phasing study of death receptor 6 and its solution conformation revealed by SAXS.,Ru H, Zhao L, Ding W, Jiao L, Shaw N, Liang W, Zhang L, Hung LW, Matsugaki N, Wakatsuki S, Liu ZJ Acta Crystallogr D Biol Crystallogr. 2012 May;68(Pt 5):521-30. Epub 2012 Apr 17. PMID:22525750[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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