5tdr: Difference between revisions

Revision as of 11:30, 16 September 2020

Set3 PHD finger in complex with histone H3K4me2

Structural highlights

5tdr is a 2 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	NA, ZN
NonStd Res:	MLY
Related:	5tdw
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[SET3_YEAST] Transcriptional regulator that acts via the formation of large multiprotein complexes that modify and/or remodel the chromatin. Required for both gene activation and repression. Part of the Set3C complex, which is required to repress early/middle sporulation genes during meiosis. Required for the transcriptional activation of genes with high activity.^[1]

Publication Abstract from PubMed

The plant homeodomain (PHD) finger of Set3 binds methylated lysine 4 of histone H3 in vitro and in vivo; however, precise selectivity of this domain has not been fully characterized. Here, we explore the determinants of methyllysine recognition by the PHD fingers of Set3 and its orthologs. We use X-ray crystallographic and spectroscopic approaches to show that the Set3 PHD finger binds di- and trimethylated states of H3K4 with comparable affinities and employs similar molecular mechanisms to form complexes with either mark. Composition of the methyllysine-binding pocket plays an essential role in determining the selectivity of the PHD fingers. The finding that the histone-binding activity is not conserved in the PHD finger of Set4 suggests different functions for the Set3 and Set4 paralogs.

Structural Insight into Recognition of Methylated Histone H3K4 by Set3.,Gatchalian J, Ali M, Andrews FH, Zhang Y, Barrett AS, Kutateladze TG J Mol Biol. 2016 Sep 30. pii: S0022-2836(16)30400-4. doi:, 10.1016/j.jmb.2016.09.020. PMID:27697561^[2]

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

References

↑ Wang A, Kurdistani SK, Grunstein M. Requirement of Hos2 histone deacetylase for gene activity in yeast. Science. 2002 Nov 15;298(5597):1412-4. PMID:12434058 doi:https://dx.doi.org/10.1126/science.1077790
↑ Gatchalian J, Ali M, Andrews FH, Zhang Y, Barrett AS, Kutateladze TG. Structural Insight into Recognition of Methylated Histone H3K4 by Set3. J Mol Biol. 2016 Sep 30. pii: S0022-2836(16)30400-4. doi:, 10.1016/j.jmb.2016.09.020. PMID:27697561 doi:https://dx.doi.org/10.1016/j.jmb.2016.09.020

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Wang A, Kurdistani SK, Grunstein M. Requirement of Hos2 histone deacetylase for gene activity in yeast. Science. 2002 Nov 15;298(5597):1412-4. PMID:12434058 doi:https://dx.doi.org/10.1126/science.1077790

[2] Gatchalian J, Ali M, Andrews FH, Zhang Y, Barrett AS, Kutateladze TG. Structural Insight into Recognition of Methylated Histone H3K4 by Set3. J Mol Biol. 2016 Sep 30. pii: S0022-2836(16)30400-4. doi:, 10.1016/j.jmb.2016.09.020. PMID:27697561 doi:https://dx.doi.org/10.1016/j.jmb.2016.09.020

[1]

[2]

@@ Line 1: / Line 1: @@
 ==Set3 PHD finger in complex with histone H3K4me2==
-<StructureSection load='5tdr' size='340' side='right' caption='[[5tdr]], [[Resolution|resolution]] 1.42&Aring;' scene=''>
+<StructureSection load='5tdr' size='340' side='right'caption='[[5tdr]], [[Resolution|resolution]] 1.42&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5tdr]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TDR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TDR FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5tdr]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TDR OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5TDR FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
 <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MLY:N-DIMETHYL-LYSINE'>MLY</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5tdw|5tdw]]</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=5tdr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tdr OCA], [http://pdbe.org/5tdr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tdr RCSB], [http://www.ebi.ac.uk/pdbsum/5tdr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tdr ProSAT]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5tdr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tdr OCA], [http://pdbe.org/5tdr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tdr RCSB], [http://www.ebi.ac.uk/pdbsum/5tdr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tdr ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 24: / Line 24: @@
 __TOC__
 </StructureSection>
+[[Category: Large Structures]]
 [[Category: Ali, M]]
 [[Category: Andrews, F H]]

5tdr: Difference between revisions

Revision as of 11:30, 16 September 2020

Set3 PHD finger in complex with histone H3K4me2

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools