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2ebi

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{{Seed}}
 
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[[Image:2ebi.png|left|200px]]
 
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<!--
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==Arabidopsis GT-1 DNA-binding domain with T133D phosphomimetic mutation==
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The line below this paragraph, containing "STRUCTURE_2ebi", creates the "Structure Box" on the page.
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<StructureSection load='2ebi' size='340' side='right'caption='[[2ebi]], [[NMR_Ensembles_of_Models | 20 NMR models]]' 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'>[[2ebi]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Arath Arath]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EBI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EBI FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2jmw|2jmw]]</div></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">T6J4.18 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3702 ARATH])</td></tr>
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{{STRUCTURE_2ebi| PDB=2ebi | SCENE= }}
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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=2ebi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ebi OCA], [https://pdbe.org/2ebi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ebi RCSB], [https://www.ebi.ac.uk/pdbsum/2ebi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ebi ProSAT]</span></td></tr>
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</table>
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== Function ==
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[[https://www.uniprot.org/uniprot/TGT1_ARATH TGT1_ARATH]] Probable transcription factor that binds specifically to the core DNA sequence 5'-GGTTAA-3'. May act as a molecular switch in response to light signals.<ref>PMID:10437822</ref> <ref>PMID:15044016</ref> <ref>PMID:7866025</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/eb/2ebi_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=2ebi 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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GT-1 is a plant transcription factor that binds to one of the cis-acting elements, BoxII, which resides within the upstream promoter region of light-responsive genes. GT-1 was assumed to act as a molecular switch modulated through Ca(2+)-dependent phosphorylation/dephosphorylation in response to light signals. It was shown previously that the phosphorylation of threonine 133 in the DNA-binding domain (DBD) of GT-1 results in enhancement of the BoxII-binding activity. Interestingly, point mutation of Thr133 to Asp also enhances the BoxII-binding activity. Here, we report the solution structures of hypothetical trihelix DBDs of the wild-type (WT) and a phosphomimetic mutant (T133D) of GT-1. First, we demonstrated that the isolated DBD of GT-1 alone has the ability to bind to DNA, and that the T133D mutation of the isolated DBD can enhance the DNA-binding affinity. The structures of these DBDs turned out to be almost identical. The structural topology resembles that of Myb DBDs, but all alpha-helices are longer in GT-1. Our NMR titration experiments suggested that these longer alpha-helices yield an enlarged DNA-binding surface. The phosphorylation site is located at the N-terminus of the third alpha-helix. We built a structural model of the T133D DBD:BoxII complex with the program HADDOCK. The model resembles the structure of the TRF1 DBD:telomeric DNA complex. Interestingly, the model implies that the phosphorylated side chain may directly interact with the bases of DNA. On the basis of our findings, we propose a mechanism by which the DNA-binding activity toward BoxII of the phosphorylated GT-1 could be enhanced.
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===Arabidopsis GT-1 DNA-binding domain with T133D phosphomimetic mutation===
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Solution structures of the trihelix DNA-binding domains of the wild-type and a phosphomimetic mutant of Arabidopsis GT-1: mechanism for an increase in DNA-binding affinity through phosphorylation.,Nagata T, Niyada E, Fujimoto N, Nagasaki Y, Noto K, Miyanoiri Y, Murata J, Hiratsuka K, Katahira M Proteins. 2010 Nov 1;78(14):3033-47. PMID:20717979<ref>PMID:20717979</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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</div>
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The line below this paragraph, {{ABSTRACT_PUBMED_20717979}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 2ebi" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 20717979 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_20717979}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Arath]]
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2EBI is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EBI OCA].
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[[Category: Large Structures]]
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[[Category: Hiratsuka, K]]
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==Reference==
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[[Category: Ikeda, Y]]
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<ref group="xtra">PMID:20717979</ref><references group="xtra"/>
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[[Category: Katahira, M]]
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[[Category: Arabidopsis thaliana]]
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[[Category: Murata, J]]
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[[Category: Hiratsuka, K.]]
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[[Category: Nagata, T]]
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[[Category: Ikeda, Y.]]
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[[Category: Niyada, E]]
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[[Category: Katahira, M.]]
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[[Category: Noto, K]]
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[[Category: Murata, J.]]
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[[Category: Uesugi, S]]
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[[Category: Nagata, T.]]
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[[Category: Yamamoto, Y]]
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[[Category: Niyada, E.]]
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[[Category: Noto, K.]]
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[[Category: Uesugi, S.]]
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[[Category: Yamamoto, Y.]]
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[[Category: Dna binding protein]]
[[Category: Dna binding protein]]
[[Category: Dna-binding domain]]
[[Category: Dna-binding domain]]
[[Category: Phosphorylation]]
[[Category: Phosphorylation]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 29 07:39:45 2010''
 

Current revision

Arabidopsis GT-1 DNA-binding domain with T133D phosphomimetic mutation

PDB ID 2ebi

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