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3lyr

From Proteopedia

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{{Seed}}
 
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[[Image:3lyr.jpg|left|200px]]
 
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<!--
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==Human Early B-cell Factor 1 (EBF1) DNA-binding domain==
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The line below this paragraph, containing "STRUCTURE_3lyr", creates the "Structure Box" on the page.
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<StructureSection load='3lyr' size='340' side='right' caption='[[3lyr]], [[Resolution|resolution]] 2.51&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3lyr]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LYR FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NH4:AMMONIUM+ION'>NH4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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-->
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<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
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{{STRUCTURE_3lyr| PDB=3lyr | SCENE= }}
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">COE1, EBF, EBF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
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<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=3lyr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lyr OCA], [http://pdbe.org/3lyr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3lyr RCSB], [http://www.ebi.ac.uk/pdbsum/3lyr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3lyr ProSAT]</span></td></tr>
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</table>
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== Function ==
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[[http://www.uniprot.org/uniprot/COE1_HUMAN COE1_HUMAN]] Transcriptional activator which recognizes variations of the palindromic sequence 5'-ATTCCCNNGGGAATT-3' (By similarity).
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ly/3lyr_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=3lyr ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The early B-cell factor (EBF) transcription factors are central regulators of development in several organs and tissues. This protein family shows low sequence similarity to other protein families, which is why structural information for the functional domains of these proteins is crucial to understand their biochemical features. We have used a modular approach to determine the crystal structures of the structured domains in the EBF family. The DNA binding domain reveals a striking resemblance to the DNA binding domains of the Rel homology superfamily of transcription factors but contains a unique zinc binding structure, termed zinc knuckle. Further the EBF proteins contain an IPT/TIG domain and an atypical helix-loop-helix domain with a novel type of dimerization motif. The data presented here provide insights into unique structural features of the EBF proteins and open possibilities for detailed molecular investigations of this important transcription factor family.
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===Human Early B-cell Factor 1 (EBF1) DNA-binding domain===
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Structural determination of functional domains in early B-cell factor (EBF) family of transcription factors reveals similarities to Rel DNA-binding proteins and a novel dimerization motif.,Siponen MI, Wisniewska M, Lehtio L, Johansson I, Svensson L, Raszewski G, Nilsson L, Sigvardsson M, Berglund H J Biol Chem. 2010 Aug 20;285(34):25875-9. Epub 2010 Jun 30. PMID:20592035<ref>PMID:20592035</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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==About this Structure==
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</div>
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3LYR is a 1 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=3LYR OCA].
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<div class="pdbe-citations 3lyr" style="background-color:#fffaf0;"></div>
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[[Category: Homo sapiens]]
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== References ==
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[[Category: Arrowsmith, C H.]]
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<references/>
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[[Category: Berg, S Van Den.]]
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__TOC__
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[[Category: Berglund, H.]]
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</StructureSection>
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[[Category: Bountra, C.]]
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[[Category: Human]]
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[[Category: Collins, R.]]
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[[Category: Arrowsmith, C H]]
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[[Category: Edwards, A M.]]
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[[Category: Berg, S Van Den]]
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[[Category: Flodin, S.]]
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[[Category: Berglund, H]]
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[[Category: Flores, A.]]
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[[Category: Bountra, C]]
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[[Category: Graslund, S.]]
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[[Category: Collins, R]]
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[[Category: Hammarstrom, M.]]
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[[Category: Edwards, A M]]
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[[Category: Johansson, I.]]
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[[Category: Flodin, S]]
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[[Category: Karlberg, T.]]
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[[Category: Flores, A]]
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[[Category: Kotenyova, T.]]
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[[Category: Graslund, S]]
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[[Category: Kraulis, P.]]
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[[Category: Hammarstrom, M]]
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[[Category: Markova, N.]]
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[[Category: Johansson, I]]
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[[Category: Moche, M.]]
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[[Category: Karlberg, T]]
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[[Category: Nordlund, P.]]
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[[Category: Kotenyova, T]]
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[[Category: Nyman, T.]]
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[[Category: Kraulis, P]]
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[[Category: Persson, C.]]
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[[Category: Markova, N]]
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[[Category: SGC, Structural Genomics Consortium.]]
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[[Category: Moche, M]]
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[[Category: Nordlund, P]]
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[[Category: Nyman, T]]
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[[Category: Persson, C]]
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[[Category: Structural genomic]]
[[Category: Schuler, H]]
[[Category: Schuler, H]]
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[[Category: Schutz, P.]]
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[[Category: Schutz, P]]
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[[Category: Siponen, M I.]]
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[[Category: Siponen, M I]]
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[[Category: Svensson, L.]]
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[[Category: Svensson, L]]
[[Category: Thorsell, A G]]
[[Category: Thorsell, A G]]
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[[Category: Tresaugues, L.]]
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[[Category: Tresaugues, L]]
[[Category: Wahlberg, E]]
[[Category: Wahlberg, E]]
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[[Category: Weigelt, J.]]
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[[Category: Weigelt, J]]
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[[Category: Welin, M.]]
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[[Category: Welin, M]]
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[[Category: Wisniewska, M.]]
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[[Category: Wisniewska, M]]
[[Category: Activator]]
[[Category: Activator]]
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[[Category: Alternative splicing]]
 
[[Category: Developmental protein]]
[[Category: Developmental protein]]
[[Category: Dna-binding]]
[[Category: Dna-binding]]
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[[Category: Nucleus]]
[[Category: Nucleus]]
[[Category: Sgc]]
[[Category: Sgc]]
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[[Category: Structural genomic]]
 
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[[Category: Structural genomics consortium]]
 
[[Category: Transcription]]
[[Category: Transcription]]
[[Category: Transcription activator]]
[[Category: Transcription activator]]
[[Category: Transcription regulation]]
[[Category: Transcription regulation]]
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[[Category: Zinc]]
 
[[Category: Zinc-finger]]
[[Category: Zinc-finger]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 17 09:48:44 2010''
 

Current revision

Human Early B-cell Factor 1 (EBF1) DNA-binding domain

3lyr, resolution 2.51Å

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