3eoe

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:48, 21 February 2024) (edit) (undo)
 
(2 intermediate revisions not shown.)
Line 1: Line 1:
 +
==Crystal Structure of Pyruvate Kinase from toxoplasma gondii, 55.m00007==
==Crystal Structure of Pyruvate Kinase from toxoplasma gondii, 55.m00007==
-
<StructureSection load='3eoe' size='340' side='right' caption='[[3eoe]], [[Resolution|resolution]] 2.31&Aring;' scene=''>
+
<StructureSection load='3eoe' size='340' side='right'caption='[[3eoe]], [[Resolution|resolution]] 2.31&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3eoe]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Toxgo Toxgo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EOE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EOE FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3eoe]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Toxoplasma_gondii Toxoplasma gondii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EOE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EOE FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.31&#8491;</td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pk ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5811 TOXGO])</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyruvate_kinase Pyruvate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.40 2.7.1.40] </span></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=3eoe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eoe OCA], [https://pdbe.org/3eoe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3eoe RCSB], [https://www.ebi.ac.uk/pdbsum/3eoe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3eoe ProSAT]</span></td></tr>
-
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3eoe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eoe OCA], [http://pdbe.org/3eoe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3eoe RCSB], [http://www.ebi.ac.uk/pdbsum/3eoe PDBsum]</span></td></tr>
+
</table>
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q969A2_TOXGO Q969A2_TOXGO]
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
Check<jmol>
<jmolCheckbox>
<jmolCheckbox>
-
<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/eo/3eoe_consurf.spt"</scriptWhenChecked>
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/eo/3eoe_consurf.spt"</scriptWhenChecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
<text>to colour the structure by Evolutionary Conservation</text>
<text>to colour the structure by Evolutionary Conservation</text>
Line 18: Line 20:
</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=3eoe ConSurf].
</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=3eoe ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
-
<div style="background-color:#fffaf0;">
 
-
== Publication Abstract from PubMed ==
 
-
BACKGROUND: Pyruvate kinase (PK), which catalyzes the final step in glycolysis converting phosphoenolpyruvate to pyruvate, is a central metabolic regulator in most organisms. Consequently PK represents an attractive therapeutic target in cancer and human pathogens, like Apicomplexans. The phylum Aplicomplexa, a group of exclusively parasitic organisms, includes the genera Plasmodium, Cryptosporidium and Toxoplasma, the etiological agents of malaria, cryptosporidiosis and toxoplasmosis respectively. Toxoplasma gondii infection causes a mild illness and is a very common infection affecting nearly one third of the world's population. METHODOLOGY/PRINCIPAL FINDINGS: We have determined the crystal structure of the PK1 enzyme from T. gondii, with the B domain in the open and closed conformations. We have also characterized its enzymatic activity and confirmed glucose-6-phosphate as its allosteric activator. This is the first description of a PK enzyme in a closed inactive conformation without any bound substrate. Comparison of the two tetrameric TgPK1 structures indicates a reorientation of the monomers with a concomitant change in the buried surface among adjacent monomers. The change in the buried surface was associated with significant B domain movements in one of the interacting monomers. CONCLUSIONS: We hypothesize that a loop in the interface between the A and B domains plays an important role linking the position of the B domain to the buried surface among monomers through two alpha-helices. The proposed model links the catalytic cycle of the enzyme with its domain movements and highlights the contribution of the interface between adjacent subunits. In addition, an unusual ordered conformation was observed in one of the allosteric binding domains and it is related to a specific apicomplexan insertion. The sequence and structural particularity would explain the atypical activation by a mono-phosphorylated sugar. The sum of peculiarities raises this enzyme as an emerging target for drug discovery.
 
- 
-
The crystal structure of Toxoplasma gondii pyruvate kinase 1.,Bakszt R, Wernimont A, Allali-Hassani A, Mok MW, Hills T, Hui R, Pizarro JC PLoS One. 2010 Sep 14;5(9):e12736. PMID:20856875<ref>PMID:20856875</ref>
 
- 
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 
-
</div>
 
-
<div class="pdbe-citations 3eoe" style="background-color:#fffaf0;"></div>
 
==See Also==
==See Also==
-
*[[Pyruvate Kinase|Pyruvate Kinase]]
+
*[[Pyruvate kinase 3D structures|Pyruvate kinase 3D structures]]
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Pyruvate kinase]]
+
[[Category: Large Structures]]
-
[[Category: Toxgo]]
+
[[Category: Toxoplasma gondii]]
-
[[Category: Arrowsmith, C H]]
+
[[Category: Arrowsmith CH]]
-
[[Category: Bochkarev, A]]
+
[[Category: Bochkarev A]]
-
[[Category: Bountra, C]]
+
[[Category: Bountra C]]
-
[[Category: Cossar, D]]
+
[[Category: Cossar D]]
-
[[Category: Edwards, A M]]
+
[[Category: Edwards AM]]
-
[[Category: Hassani, A]]
+
[[Category: Hassani A]]
-
[[Category: Hui, R]]
+
[[Category: Hui R]]
-
[[Category: Kozieradzki, I]]
+
[[Category: Kozieradzki I]]
-
[[Category: Lew, J]]
+
[[Category: Lew J]]
-
[[Category: Pizarro, J]]
+
[[Category: Pizarro J]]
-
[[Category: Structural genomic]]
+
[[Category: Schapiro M]]
-
[[Category: Schapiro, M]]
+
[[Category: Vedadi M]]
-
[[Category: Vedadi, M]]
+
[[Category: Wasney G]]
-
[[Category: Wasney, G]]
+
[[Category: Weigelt J]]
-
[[Category: Weigelt, J]]
+
[[Category: Wernimont AK]]
-
[[Category: Wernimont, A K]]
+
-
[[Category: Glycolysis]]
+
-
[[Category: Magnesium]]
+
-
[[Category: Metal-binding]]
+
-
[[Category: Sgc]]
+
-
[[Category: Transferase]]
+

Current revision

Crystal Structure of Pyruvate Kinase from toxoplasma gondii, 55.m00007

PDB ID 3eoe

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools