1yo5

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{{Seed}}
 
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[[Image:1yo5.png|left|200px]]
 
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==Analysis of the 2.0A crystal structure of the protein-DNA complex of human PDEF Ets domain bound to the prostate specific antigen regulatory site==
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The line below this paragraph, containing "STRUCTURE_1yo5", creates the "Structure Box" on the page.
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<StructureSection load='1yo5' size='340' side='right'caption='[[1yo5]], [[Resolution|resolution]] 2.00&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'>[[1yo5]] is a 3 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=1YO5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YO5 FirstGlance]. <br>
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</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&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1yo5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yo5 OCA], [https://pdbe.org/1yo5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yo5 RCSB], [https://www.ebi.ac.uk/pdbsum/1yo5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yo5 ProSAT]</span></td></tr>
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{{STRUCTURE_1yo5| PDB=1yo5 | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/SPDEF_HUMAN SPDEF_HUMAN] May function as an androgen-independent transactivator of the prostate-specific antigen (PSA) promoter. Binds to 5'-GGAT-3' DNA sequences. May play a role in the regulation of the prostate gland and/or prostate cancer development. Acts as a transcriptional activator for SERPINB5 promoter.<ref>PMID:10625666</ref>
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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/yo/1yo5_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=1yo5 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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PDEF, a prostate epithelial specific transcription factor, is a member of the Ets family of DNA binding proteins. Here we report a 2.0 A crystal structure of the PDEF Ets domain in complex with a natural, high-affinity DNA binding site in the promoter/enhancer region of the human prostate specific antigen gene. Comparison of the PDEF-DNA complex with other Ets complexes revealed key features that are shared among Ets members, as well as important differences in substrate specification at both the "GGA" core and the flanking regions of the DNA site. The combination of the serine residue at position 308 and the glutamine at position 311 explains the previous observation that the PDEF binds preferentially to a thymine at the +4 position of its binding site. Despite the common essential features that are shared among Ets members, PDEF demonstrates distinct patterns of interactions at different positions of DNA in achieving sequence specific recognition. Collectively, the common and unique interactions with both the DNA bases and the backbone phosphates lead to substrate specificity and individual preference for certain DNA sites.
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===Analysis of the 2.0A crystal structure of the protein-DNA complex of human PDEF Ets domain bound to the prostate specific antigen regulatory site===
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Analysis of the 2.0 A crystal structure of the protein-DNA complex of the human PDEF Ets domain bound to the prostate specific antigen regulatory site.,Wang Y, Feng L, Said M, Balderman S, Fayazi Z, Liu Y, Ghosh D, Gulick AM Biochemistry. 2005 May 17;44(19):7095-106. PMID:15882048<ref>PMID:15882048</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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The line below this paragraph, {{ABSTRACT_PUBMED_15882048}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 1yo5" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 15882048 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_15882048}}
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__TOC__
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</StructureSection>
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==About this Structure==
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1YO5 is a 3 chains structure of sequences 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=1YO5 OCA].
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==Reference==
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<ref group="xtra">PMID:15882048</ref><references group="xtra"/>
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[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
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[[Category: Balderman, S.]]
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[[Category: Large Structures]]
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[[Category: Fayazi, Z.]]
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[[Category: Balderman S]]
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[[Category: Feng, L.]]
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[[Category: Fayazi Z]]
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[[Category: Ghosh, D.]]
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[[Category: Feng L]]
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[[Category: Gulick, A M.]]
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[[Category: Ghosh D]]
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[[Category: Liu, Y.]]
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[[Category: Gulick AM]]
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[[Category: Said, M.]]
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[[Category: Liu Y]]
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[[Category: Wang, Y.]]
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[[Category: Said M]]
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[[Category: Double helix]]
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[[Category: Wang Y]]
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[[Category: Et]]
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[[Category: Protein-dna complex]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 16:41:35 2009''
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Current revision

Analysis of the 2.0A crystal structure of the protein-DNA complex of human PDEF Ets domain bound to the prostate specific antigen regulatory site

PDB ID 1yo5

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