1q88: Difference between revisions

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[[Image:1q88.gif|left|200px]]<br /><applet load="1q88" size="350" color="white" frame="true" align="right" spinBox="true"
caption="1q88, resolution 2.42&Aring;" />
'''Crystal structure of the C-domain of the T.vaginalis Inr binding protein, IBP39 (monoclinic form)'''<br />


==Overview==
==Crystal structure of the C-domain of the T.vaginalis Inr binding protein, IBP39 (monoclinic form)==
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='1q88' size='340' side='right'caption='[[1q88]], [[Resolution|resolution]] 2.42&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1q88]] is a 2 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=1Q88 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Q88 FirstGlance]. <br>
1Q88 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Trichomonas_vaginalis Trichomonas vaginalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q88 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]] 2.42&#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=1q88 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q88 OCA], [https://pdbe.org/1q88 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1q88 RCSB], [https://www.ebi.ac.uk/pdbsum/1q88 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1q88 ProSAT]</span></td></tr>
==Reference==
</table>
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]
== Function ==
[[Category: Single protein]]
[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/q8/1q88_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=1q88 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: Schumacher, M A.]]
[[Category: Schumacher MA]]
[[Category: core promoter]]
[[Category: initiator]]
[[Category: inr]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:36:53 2008''
Retrieved from "https://proteopedia.org/1q88"