2jv0: Difference between revisions

Revision as of 07:42, 9 March 2017

SET domain of RIZ1 tumor suppressor (PRDM2)

Structural highlights

2jv0 is a 1 chain structure. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
NonStd Res:	IAS
Related:	2qpw
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[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.^[1]

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

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^[2]

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

References

↑ Kim KC, Geng L, Huang S. Inactivation of a histone methyltransferase by mutations in human cancers. Cancer Res. 2003 Nov 15;63(22):7619-23. PMID:14633678
↑ Briknarova K, Zhou X, Satterthwait A, Hoyt DW, Ely KR, Huang S. Structural studies of the SET domain from RIZ1 tumor suppressor. Biochem Biophys Res Commun. 2008 Feb 15;366(3):807-13. Epub 2007 Dec 17. PMID:18082620 doi:https://dx.doi.org/10.1016/j.bbrc.2007.12.034

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OCA

[1] Kim KC, Geng L, Huang S. Inactivation of a histone methyltransferase by mutations in human cancers. Cancer Res. 2003 Nov 15;63(22):7619-23. PMID:14633678

[2] Briknarova K, Zhou X, Satterthwait A, Hoyt DW, Ely KR, Huang S. Structural studies of the SET domain from RIZ1 tumor suppressor. Biochem Biophys Res Commun. 2008 Feb 15;366(3):807-13. Epub 2007 Dec 17. PMID:18082620 doi:https://dx.doi.org/10.1016/j.bbrc.2007.12.034

[1]

[2]

@@ Line 1: / Line 1: @@
 ==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 [http://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 [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JV0 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2jv0]] is a 1 chain structure. 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 [http://oca.weizmann.ac.il/oca-docs/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">[[2qpw|2qpw]]</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PRDM2, RIZ ([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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2jv0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jv0 OCA], [http://pdbe.org/2jv0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2jv0 RCSB], [http://www.ebi.ac.uk/pdbsum/2jv0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2jv0 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=2jv0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jv0 OCA], [http://pdbe.org/2jv0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2jv0 RCSB], [http://www.ebi.ac.uk/pdbsum/2jv0 PDBsum]</span></td></tr>
 </table>
 == Function ==
@@ Line 33: / Line 33: @@
 __TOC__
 </StructureSection>
-[[Category: Human]]
 [[Category: Briknarova, K]]
 [[Category: Activator]]

2jv0: Difference between revisions

Revision as of 07:42, 9 March 2017

SET domain of RIZ1 tumor suppressor (PRDM2)

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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