1vga: Difference between revisions

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-{{Seed}}
-[[Image:1vga.png|left|200px]]
-<!--
+==Structures of unligated and inhibitor complexes of W168F mutant of Triosephosphate Isomerase from Plasmodium falciparum==
-The line below this paragraph, containing "STRUCTURE_1vga", creates the "Structure Box" on the page.
+<StructureSection load='1vga' size='340' side='right'caption='[[1vga]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[1vga]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Plasmodium_falciparum Plasmodium falciparum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VGA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1VGA FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#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=1vga FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vga OCA], [https://pdbe.org/1vga PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1vga RCSB], [https://www.ebi.ac.uk/pdbsum/1vga PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1vga ProSAT]</span></td></tr>
-{{STRUCTURE_1vga|  PDB=1vga  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/TPIS_PLAFA TPIS_PLAFA]
+== 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/vg/1vga_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=1vga ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The enzymatic reaction of triosephosphate isomerase (TIM) is controlled by the movement of a loop (loop6, residues 166-176). Crystal structures of TIMs from a variety of sources have revealed that the loop6, which is in an open conformation in the unliganded enzyme, adopts a closed conformation in inhibitor complexes. In contrast, structures with loop open conformation are obtained in most of the complexes of TIM from the malarial parasite Plasmodium falciparum (PfTIM). W168 is a conserved N-terminal hinge residue, involved in different sets of interactions in the "open" and "closed" forms of loop6. The role of W168 in determining the loop conformation was examined by structural studies on the mutant W168F and its complexes with ligands. The three-dimensional structures of unliganded mutant (1.8 A) and complexes with sulfate (2.8 A) and glycerol-2-phosphate (G2P) (2.8 A) have been determined. Loop6 was found disordered in these structures, reflecting the importance of W168 in stabilizing either the open or the closed states. Critical sequence differences between the Plasmodium enzyme and other TIMs may influence the equilibrium between the closed and open forms. Examination of the environment of the loop6 shows that its propensity for the open or the closed forms is influenced not only by Phe96 as suggested earlier, but also by Asn233, which occurs in the vicinity of the active site. This residue is Gly in the other TIM sequences and probably plays a crucial role in the mode of ligand binding, which in turn affects the loop opening/closing process in PfTIM.
-===Structures of unligated and inhibitor complexes of W168F mutant of Triosephosphate Isomerase from Plasmodium falciparum===
+Structures of unliganded and inhibitor complexes of W168F, a Loop6 hinge mutant of Plasmodium falciparum triosephosphate isomerase: observation of an intermediate position of loop6.,Eaazhisai K, Balaram H, Balaram P, Murthy MR J Mol Biol. 2004 Oct 22;343(3):671-84. PMID:15465054<ref>PMID:15465054</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1vga" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_15465054}}, adds the Publication Abstract to the page
+*[[Triose phosphate isomerase 3D structures|Triose phosphate isomerase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 15465054 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_15465054}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-VGA is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Plasmodium_falciparum Plasmodium falciparum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VGA OCA].
-==Reference==
-<ref group="xtra">PMID:15465054</ref><references group="xtra"/>
-[[Category: Plasmodium falciparum]]
-[[Category: Triose-phosphate isomerase]]
-[[Category: Balaram, H.]]
-[[Category: Balaram, P.]]
-[[Category: Eaazhisai, K.]]
-[[Category: Murthy, M R.N.]]
-[[Category: Flexibility]]
-[[Category: Intermediate position]]
-[[Category: Loop6 mutant]]
 [[Category: Plasmodium falciparum]]
-[[Category: Triosephosphate isomerase]]
+[[Category: Balaram H]]
+[[Category: Balaram P]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 09:26:48 2009''
+[[Category: Eaazhisai K]]
+[[Category: Murthy MRN]]