This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


1pcz

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1pcz" size="450" color="white" frame="true" align="right" spinBox="true" caption="1pcz, resolution 2.20&Aring;" /> '''STRUCTURE OF TATA-BI...)
Current revision (05:54, 17 April 2024) (edit) (undo)
 
(16 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1pcz.gif|left|200px]]<br /><applet load="1pcz" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1pcz, resolution 2.20&Aring;" />
 
-
'''STRUCTURE OF TATA-BINDING PROTEIN'''<br />
 
-
==Overview==
+
==STRUCTURE OF TATA-BINDING PROTEIN==
-
This study analyzes the three-dimensional structure of the TATA-box, binding protein (TBP) from the hyperthermophilic archaea Pyrococcus, woesei. The crystal structure of P. woesei TBP (PwTBP) was solved at 2.2 A, by X-ray diffraction and as expected from sequence homology (36% to 41%, identical to eukaryotic TBPs) its overall structure is very similar to, eukaryotic TBPs. The thermal unfolding transition temperature of this, protein was measured by differential scanning calorimetry to be 101, degrees C, which is more than 40 degrees C higher than that of yeast TBP., Preliminary titration calorimetry data show that the affinity of PwTBP for, its DNA target, unlike its eukaryotic counterparts, is enhanced by, increasing the temperature and salt concentration. The structure reveals, possible explanations for this thermostability and these unusual DNA, binding properties. The crystal structure of this hyperthermostable, protein was compared to its mesophilic homologs and analyzed for, differences in the native structure that may contribute to, thermostability. Differences found were: (1) a disulfide bond not found in, mesophilic counterparts; (2) an increased number of surface electrostatic, interactions; (3) more compact protein packing. The presumed DNA binding, surface of PwTBP, like its eukaryotic counterparts, is hydrophobic but the, electrostatic profile surrounding the protein is relatively neutral, compared to the asymmetric positive potential that surrounds eukaryotic, TBPs. The total reliance on a hydrophobic interface with DNA may explain, the enhanced affinity of PwTBP for its DNA promoter at higher temperatures, and increased salt concentration.
+
<StructureSection load='1pcz' size='340' side='right'caption='[[1pcz]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1pcz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_woesei Pyrococcus woesei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PCZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PCZ FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#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=1pcz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pcz OCA], [https://pdbe.org/1pcz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pcz RCSB], [https://www.ebi.ac.uk/pdbsum/1pcz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pcz ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/TBP_PYRWO TBP_PYRWO] General factor that plays a role in the activation of archaeal genes transcribed by RNA polymerase. Binds specifically to the TATA box promoter element which lies close to the position of transcription initiation.
 +
== 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/pc/1pcz_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=1pcz ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1PCZ is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Pyrococcus_woesei Pyrococcus woesei]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1PCZ OCA].
+
*[[TATA-binding protein 3D structures|TATA-binding protein 3D structures]]
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
The crystal structure of a hyperthermophilic archaeal TATA-box binding protein., DeDecker BS, O'Brien R, Fleming PJ, Geiger JH, Jackson SP, Sigler PB, J Mol Biol. 1996 Dec 20;264(5):1072-84. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9000631 9000631]
+
[[Category: Large Structures]]
[[Category: Pyrococcus woesei]]
[[Category: Pyrococcus woesei]]
-
[[Category: Single protein]]
+
[[Category: Dedecker BS]]
-
[[Category: Dedecker, B.S.]]
+
[[Category: Sigler PB]]
-
[[Category: Sigler, P.B.]]
+
-
[[Category: dna-binding protein]]
+
-
[[Category: nuclear protein]]
+
-
[[Category: transcription regulation]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 23:42:01 2007''
+

Current revision

STRUCTURE OF TATA-BINDING PROTEIN

PDB ID 1pcz

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1pcz"
Personal tools