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2jv0
From Proteopedia
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| - | [[Image:2jv0.jpg|left|200px]] | ||
| - | + | ==SET domain of RIZ1 tumor suppressor (PRDM2)== | |
| - | + | <StructureSection load='2jv0' size='340' side='right'caption='[[2jv0]], [[NMR_Ensembles_of_Models | 16 NMR models]]' scene=''> | |
| - | + | == Structural highlights == | |
| - | | | + | <table><tr><td colspan='2'>[[2jv0]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JV0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JV0 FirstGlance]. <br> |
| - | | | + | </td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=IAS:BETA-L-ASPARTIC+ACID'>IAS</scene></td></tr> |
| - | | | + | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2qpw|2qpw]]</div></td></tr> |
| - | + | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PRDM2, RIZ ([https://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=2jv0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jv0 OCA], [https://pdbe.org/2jv0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2jv0 RCSB], [https://www.ebi.ac.uk/pdbsum/2jv0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2jv0 ProSAT]</span></td></tr> | |
| - | + | </table> | |
| - | + | == Function == | |
| - | + | [[https://www.uniprot.org/uniprot/PRDM2_HUMAN PRDM2_HUMAN]] S-adenosyl-L-methionine-dependent histone methyltransferase that specifically methylates 'Lys-9' of histone H3. May function as a DNA-binding transcription factor. Binds to the macrophage-specific TPA-responsive element (MTE) of the HMOX1 (heme oxygenase 1) gene and may act as a transcriptional activator of this gene.<ref>PMID:14633678</ref> | |
| - | '' | + | == Evolutionary Conservation == |
| - | + | [[Image:Consurf_key_small.gif|200px|right]] | |
| - | + | Check<jmol> | |
| - | == | + | <jmolCheckbox> |
| + | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jv/2jv0_consurf.spt"</scriptWhenChecked> | ||
| + | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | ||
| + | <text>to colour the structure by Evolutionary Conservation</text> | ||
| + | </jmolCheckbox> | ||
| + | </jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2jv0 ConSurf]. | ||
| + | <div style="clear:both"></div> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
RIZ1 is a transcriptional regulator and tumor suppressor that catalyzes methylation of lysine 9 of histone H3. It contains a distinct SET domain, sometimes referred to as PR (PRDI-BF1 and RIZ1 homology) domain, that is responsible for its catalytic activity. We determined the solution structure of the PR domain from RIZ1 and characterized its interaction with S-adenosyl-l-homocysteine (SAH) and a peptide from histone H3. Despite low sequence identity with canonical SET domains, the PR domain displays a typical SET fold including a pseudo-knot at the C-terminus. The N-flanking sequence of RIZ1 PR domain adopts a novel conformation and interacts closely with the SET fold. The C-flanking sequence contains an alpha-helix that points away from the protein face that harbors active site in other SET domains. The SET fold of RIZ1 does not have detectable affinity for SAH but it interacts with a synthetic peptide comprising residues 1-20 of histone H3. | RIZ1 is a transcriptional regulator and tumor suppressor that catalyzes methylation of lysine 9 of histone H3. It contains a distinct SET domain, sometimes referred to as PR (PRDI-BF1 and RIZ1 homology) domain, that is responsible for its catalytic activity. We determined the solution structure of the PR domain from RIZ1 and characterized its interaction with S-adenosyl-l-homocysteine (SAH) and a peptide from histone H3. Despite low sequence identity with canonical SET domains, the PR domain displays a typical SET fold including a pseudo-knot at the C-terminus. The N-flanking sequence of RIZ1 PR domain adopts a novel conformation and interacts closely with the SET fold. The C-flanking sequence contains an alpha-helix that points away from the protein face that harbors active site in other SET domains. The SET fold of RIZ1 does not have detectable affinity for SAH but it interacts with a synthetic peptide comprising residues 1-20 of histone H3. | ||
| - | + | Structural studies of the SET domain from RIZ1 tumor suppressor.,Briknarova K, Zhou X, Satterthwait A, Hoyt DW, Ely KR, Huang S Biochem Biophys Res Commun. 2008 Feb 15;366(3):807-13. Epub 2007 Dec 17. PMID:18082620<ref>PMID:18082620</ref> | |
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| - | Structural studies of the SET domain from RIZ1 tumor suppressor., Briknarova K, Zhou X, Satterthwait A, Hoyt DW, Ely KR, Huang S | + | |
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| - | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
| + | </div> | ||
| + | <div class="pdbe-citations 2jv0" style="background-color:#fffaf0;"></div> | ||
| + | == References == | ||
| + | <references/> | ||
| + | __TOC__ | ||
| + | </StructureSection> | ||
| + | [[Category: Human]] | ||
| + | [[Category: Large Structures]] | ||
| + | [[Category: Briknarova, K]] | ||
| + | [[Category: Activator]] | ||
| + | [[Category: Alternative initiation]] | ||
| + | [[Category: Dna-binding]] | ||
| + | [[Category: Histone lysine methyltransferase]] | ||
| + | [[Category: Hkmt]] | ||
| + | [[Category: Metal-binding]] | ||
| + | [[Category: Nucleus]] | ||
| + | [[Category: Phosphorylation]] | ||
| + | [[Category: Pr domain]] | ||
| + | [[Category: Prdm2]] | ||
| + | [[Category: Protein lysine methyltransferase]] | ||
| + | [[Category: Riz1]] | ||
| + | [[Category: Set domain]] | ||
| + | [[Category: Transcription]] | ||
| + | [[Category: Transcription regulation]] | ||
| + | [[Category: Zinc-finger]] | ||
Current revision
SET domain of RIZ1 tumor suppressor (PRDM2)
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Categories: Human | Large Structures | Briknarova, K | Activator | Alternative initiation | Dna-binding | Histone lysine methyltransferase | Hkmt | Metal-binding | Nucleus | Phosphorylation | Pr domain | Prdm2 | Protein lysine methyltransferase | Riz1 | Set domain | Transcription | Transcription regulation | Zinc-finger
