3pgk: Difference between revisions

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-[[Image:3pgk.gif|left|200px]]<br />
-<applet load="3pgk" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="3pgk, resolution 2.5&Aring;" />
-'''THE STRUCTURE OF YEAST PHOSPHOGLYCERATE KINASE AT 0.25 NM RESOLUTION'''<br />
-==Overview==
+==The structure of yeast phosphoglycerate kinase at 0.25 nm resolution==
-The structure of yeast phosphoglycerate kinase has been determined with, data obtained from amino acid sequence, nucleotide sequence, and X-ray, crystallographic studies. The substrate binding sites, as deduced from, electron density maps, are compatible with known substrate specificity and, the stereochemical requirements for the enzymic reaction. A, carboxyl-imidazole interaction appears to be involved in controlling the, transition between the open and closed forms of the enzyme.
+<StructureSection load='3pgk' size='340' side='right'caption='[[3pgk]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[3pgk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1pgk 1pgk]. The February 2004 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''The Glycolytic Enzymes''  by David S. Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2004_2 10.2210/rcsb_pdb/mom_2004_2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PGK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PGK 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]] 2.5&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3PG:3-PHOSPHOGLYCERIC+ACID'>3PG</scene>, <scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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=3pgk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pgk OCA], [https://pdbe.org/3pgk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pgk RCSB], [https://www.ebi.ac.uk/pdbsum/3pgk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pgk ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/PGK_YEAST PGK_YEAST]
+== 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/pg/3pgk_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=3pgk ConSurf].
+<div style="clear:both"></div>
-==About this Structure==
+==See Also==
-PGK is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae] with MG, ACE, ATP and 3PG as [http://en.wikipedia.org/wiki/ligands ligands]. This structure superseeds the now removed PDB entry 1PGK. The following page contains interesting information on the relation of 3PGK with [[http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb50_1.html The Glycolytic Enzymes]]. Active as [http://en.wikipedia.org/wiki/Phosphoglycerate_kinase Phosphoglycerate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.2.3 2.7.2.3] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=3PGK OCA].
+*[[Phosphoglycerate kinase 3D structures|Phosphoglycerate kinase 3D structures]]
+__TOC__
-==Reference==
+</StructureSection>
-Sequence and structure of yeast phosphoglycerate kinase., Watson HC, Walker NP, Shaw PJ, Bryant TN, Wendell PL, Fothergill LA, Perkins RE, Conroy SC, Dobson MJ, Tuite MF, et al., EMBO J. 1982;1(12):1635-40. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=6765200 6765200]
+[[Category: Large Structures]]
-[[Category: Phosphoglycerate kinase]]
+[[Category: RCSB PDB Molecule of the Month]]
 [[Category: Saccharomyces cerevisiae]]
-[[Category: Single protein]]
 [[Category: The Glycolytic Enzymes]]
-[[Category: Shaw, P.J.]]
+[[Category: Shaw PJ]]
-[[Category: Walker, N.P.]]
+[[Category: Walker NP]]
-[[Category: Watson, H.C.]]
+[[Category: Watson HC]]
-[[Category: 3PG]]
-[[Category: ACE]]
-[[Category: ATP]]
-[[Category: MG]]
-[[Category: phosphotransferase(carboxyl as acceptor)]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 18 09:10:32 2007''