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New page: left|200px<br /><applet load="1pp8" size="450" color="white" frame="true" align="right" spinBox="true" caption="1pp8, resolution 3.05Å" /> '''crystal structure of...
 
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[[Image:1pp8.gif|left|200px]]<br /><applet load="1pp8" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1pp8, resolution 3.05&Aring;" />
'''crystal structure of the T. vaginalis IBP39 Initiator binding domain (IBD) bound to the alpha-SCS Inr element'''<br />


==Overview==
==crystal structure of the T. vaginalis IBP39 Initiator binding domain (IBD) bound to the alpha-SCS Inr element==
Transcription start site selection in eukaryotes is mediated through, combinations of the TATA, initiator (Inr), and downstream promoter, elements (DPE). In Trichomonas vaginalis, a parabasalian flagellate, thought to represent an ancient eukaryote lineage, the Inr appears to be, solely responsible for start site selection and is recognized by the, initiator binding protein 39 kDa (IBP39). IBP39 contains an N-terminal Inr, binding domain (IBD) connected via a flexible linker to a C-terminal, domain (C domain). Here we present crystal structures of the apoIBD and, IBD-Inr complexes and the C domain. The IBD structures reveal a, winged-helix motif with prokaryotic and eukaryotic features and a scaffold, similar to that of ETS-family proteins. The C domain structure and, biochemical studies indicate that it interacts with the T. vaginalis RNAP, II large subunit C-terminal domain. These data suggest that binding of, IBP39 to the Inr directly recruits RNAP II and in this way initiates, transcription.
<StructureSection load='1pp8' size='340' side='right'caption='[[1pp8]], [[Resolution|resolution]] 3.05&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1pp8]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/Trichomonas_vaginalis Trichomonas vaginalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PP8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PP8 FirstGlance]. <br>
1PP8 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Trichomonas_vaginalis Trichomonas vaginalis] with SO4 as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1PP8 OCA].  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.05&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1pp8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pp8 OCA], [https://pdbe.org/1pp8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pp8 RCSB], [https://www.ebi.ac.uk/pdbsum/1pp8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pp8 ProSAT]</span></td></tr>
Structural basis of core promoter recognition in a primitive eukaryote., Schumacher MA, Lau AO, Johnson PJ, Cell. 2003 Nov 14;115(4):413-24. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=14622596 14622596]
</table>
[[Category: Single protein]]
== Function ==
[https://www.uniprot.org/uniprot/Q95VR4_TRIVA Q95VR4_TRIVA]
== 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/pp/1pp8_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=1pp8 ConSurf].
<div style="clear:both"></div>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Trichomonas vaginalis]]
[[Category: Trichomonas vaginalis]]
[[Category: Johnson, P.J.]]
[[Category: Johnson PJ]]
[[Category: Lau, A.O.T.]]
[[Category: Lau AOT]]
[[Category: Schumacher, M.A.]]
[[Category: Schumacher MA]]
[[Category: SO4]]
[[Category: core promoter]]
[[Category: ibp39]]
[[Category: initiator binding protein]]
[[Category: inr]]
[[Category: t. vaginalis]]
[[Category: transcription]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 02:49:57 2007''

Latest revision as of 08:10, 14 February 2024

crystal structure of the T. vaginalis IBP39 Initiator binding domain (IBD) bound to the alpha-SCS Inr element

1pp8, resolution 3.05Å

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