This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


1ml9

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:45, 14 February 2024) (edit) (undo)
 
(13 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1ml9.gif|left|200px]]
 
-
{{Structure
+
==Structure of the Neurospora SET domain protein DIM-5, a histone lysine methyltransferase==
-
|PDB= 1ml9 |SIZE=350|CAPTION= <scene name='initialview01'>1ml9</scene>, resolution 1.98&Aring;
+
<StructureSection load='1ml9' size='340' side='right'caption='[[1ml9]], [[Resolution|resolution]] 1.98&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=UNK:UNKNOWN'>UNK</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>
+
<table><tr><td colspan='2'>[[1ml9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Neurospora_crassa Neurospora crassa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ML9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ML9 FirstGlance]. <br>
-
|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Histone-lysine_N-methyltransferase Histone-lysine N-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.43 2.1.1.43] </span>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.98&#8491;</td></tr>
-
|GENE=
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-
|DOMAIN=
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ml9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ml9 OCA], [https://pdbe.org/1ml9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ml9 RCSB], [https://www.ebi.ac.uk/pdbsum/1ml9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ml9 ProSAT]</span></td></tr>
-
|RELATEDENTRY=
+
</table>
-
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ml9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ml9 OCA], [http://www.ebi.ac.uk/pdbsum/1ml9 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1ml9 RCSB]</span>
+
== Function ==
-
}}
+
[https://www.uniprot.org/uniprot/DIM5_NEUCR DIM5_NEUCR] Histone methyltransferase that specifically trimethylates histone H3 to form H3K9me3. H3K9me3 marks chromatin regions for DNA methylation.<ref>PMID:11713521</ref> <ref>PMID:12679815</ref> <ref>PMID:12372305</ref> <ref>PMID:12887903</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/ml/1ml9_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=1ml9 ConSurf].
 +
<div style="clear:both"></div>
-
'''Structure of the Neurospora SET domain protein DIM-5, a histone lysine methyltransferase'''
+
==See Also==
-
 
+
*[[Histone methyltransferase 3D structures|Histone methyltransferase 3D structures]]
-
 
+
== References ==
-
==Overview==
+
<references/>
-
AdoMet-dependent methylation of histones is part of the "histone code" that can profoundly influence gene expression. We describe the crystal structure of Neurospora DIM-5, a histone H3 lysine 9 methyltranferase (HKMT), determined at 1.98 A resolution, as well as results of biochemical characterization and site-directed mutagenesis of key residues. This SET domain protein bears no structural similarity to previously characterized AdoMet-dependent methyltransferases but includes notable features such as a triangular Zn3Cys9 zinc cluster in the pre-SET domain and a AdoMet binding site in the SET domain essential for methyl transfer. The structure suggests a mechanism for the methylation reaction and provides the structural basis for functional characterization of the HKMT family and the SET domain.
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Large Structures]]
-
1ML9 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Neurospora_crassa Neurospora crassa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ML9 OCA].
+
-
 
+
-
==Reference==
+
-
Structure of the Neurospora SET domain protein DIM-5, a histone H3 lysine methyltransferase., Zhang X, Tamaru H, Khan SI, Horton JR, Keefe LJ, Selker EU, Cheng X, Cell. 2002 Oct 4;111(1):117-27. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12372305 12372305]
+
-
[[Category: Histone-lysine N-methyltransferase]]
+
[[Category: Neurospora crassa]]
[[Category: Neurospora crassa]]
-
[[Category: Single protein]]
+
[[Category: Cheng X]]
-
[[Category: Cheng, X.]]
+
[[Category: Horton JR]]
-
[[Category: Horton, J R.]]
+
[[Category: Keefe LJ]]
-
[[Category: Keefe, L J.]]
+
[[Category: Khan SI]]
-
[[Category: Khan, S I.]]
+
[[Category: Selker EU]]
-
[[Category: Selker, E U.]]
+
[[Category: Tamaru H]]
-
[[Category: Tamaru, H.]]
+
[[Category: Zhang X]]
-
[[Category: Zhang, X.]]
+
-
[[Category: adomet-dependent methyltransferase histone h3 lysine-9 methylation]]
+
-
[[Category: dim-5]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 22:17:34 2008''
+

Current revision

Structure of the Neurospora SET domain protein DIM-5, a histone lysine methyltransferase

PDB ID 1ml9

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1ml9"
Personal tools