3hme: Difference between revisions

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-[[Image:3hme.png|left|200px]]
-<!--
+==Crystal structure of human bromodomain containing 9 isoform 1 (BRD9)==
-The line below this paragraph, containing "STRUCTURE_3hme", creates the "Structure Box" on the page.
+<StructureSection load='3hme' size='340' side='right'caption='[[3hme]], [[Resolution|resolution]] 2.23&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[3hme]] is a 2 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=3HME OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HME FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.23&#8491;</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=3hme FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hme OCA], [https://pdbe.org/3hme PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hme RCSB], [https://www.ebi.ac.uk/pdbsum/3hme PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hme ProSAT]</span></td></tr>
-{{STRUCTURE_3hme|  PDB=3hme  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/BRD9_HUMAN BRD9_HUMAN] May play a role in chromatin remodeling and regulation of transcription.
+== 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/hm/3hme_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=3hme ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Bromodomains (BRDs) are protein interaction modules that specifically recognize epsilon-N-lysine acetylation motifs, a key event in the reading process of epigenetic marks. The 61 BRDs in the human genome cluster into eight families based on structure/sequence similarity. Here, we present 29 high-resolution crystal structures, covering all BRD families. Comprehensive crossfamily structural analysis identifies conserved and family-specific structural features that are necessary for specific acetylation-dependent substrate recognition. Screening of more than 30 representative BRDs against systematic histone-peptide arrays identifies new BRD substrates and reveals a strong influence of flanking posttranslational modifications, such as acetylation and phosphorylation, suggesting that BRDs recognize combinations of marks rather than singly acetylated sequences. We further uncovered a structural mechanism for the simultaneous binding and recognition of diverse diacetyl-containing peptides by BRD4. These data provide a foundation for structure-based drug design of specific inhibitors for this emerging target family.
-===Crystal structure of human bromodomain containing 9 isoform 1 (BRD9)===
+Histone recognition and large-scale structural analysis of the human bromodomain family.,Filippakopoulos P, Picaud S, Mangos M, Keates T, Lambert JP, Barsyte-Lovejoy D, Felletar I, Volkmer R, Muller S, Pawson T, Gingras AC, Arrowsmith CH, Knapp S Cell. 2012 Mar 30;149(1):214-31. PMID:22464331<ref>PMID:22464331</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3hme" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_22464331}}, adds the Publication Abstract to the page
+*[[Bromodomain-containing protein 3D structures|Bromodomain-containing protein 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 22464331 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_22464331}}
+__TOC__
+</StructureSection>
-==About this Structure==
-[[3hme]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HME OCA].
-==Reference==
-<ref group="xtra">PMID:022464331</ref><references group="xtra"/>
 [[Category: Homo sapiens]]
-[[Category: Arrowsmith, C H.]]
+[[Category: Large Structures]]
-[[Category: Bountra, C.]]
+[[Category: Arrowsmith CH]]
-[[Category: Chaikuad, A.]]
+[[Category: Bountra C]]
-[[Category: Delft, F von.]]
+[[Category: Chaikuad A]]
-[[Category: Edwards, A.]]
+[[Category: Edwards A]]
-[[Category: Eswaran, J.]]
+[[Category: Eswaran J]]
-[[Category: Filippakopoulos, P.]]
+[[Category: Filippakopoulos P]]
-[[Category: Keates, T.]]
+[[Category: Keates T]]
-[[Category: Knapp, S.]]
+[[Category: Knapp S]]
-[[Category: Picaud, S.]]
+[[Category: Picaud S]]
-[[Category: Roos, A.]]
+[[Category: Roos A]]
-[[Category: Weigelt, J.]]
+[[Category: Weigelt J]]
-[[Category: Brd9]]
+[[Category: Von Delft F]]
-[[Category: Bromodomain]]
-[[Category: Bromodomain containing 9 isoform 1]]
-[[Category: Lavs3040]]
-[[Category: Pro9856]]
-[[Category: Rhabdomyosarcoma antigen mu-rms-40 8]]
-[[Category: Sarcoma antigen ny-sar-29]]
-[[Category: Sgc]]
-[[Category: Signaling protein]]
-[[Category: Structural genomic]]
-[[Category: Structural genomics consortium]]