3pgk: Difference between revisions

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-[[Image:3pgk.gif|left|200px]]
- {{Structure
+==The structure of yeast phosphoglycerate kinase at 0.25 nm resolution==
-|PDB= 3pgk |SIZE=350|CAPTION= <scene name='initialview01'>3pgk</scene>, resolution 2.5&Aring;
+<StructureSection load='3pgk' size='340' side='right'caption='[[3pgk]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=ATP:ADENOSINE-5&#39;-TRIPHOSPHATE'>ATP</scene> and <scene name='pdbligand=3PG:3-PHOSPHOGLYCERIC ACID'>3PG</scene>
+<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>
-|ACTIVITY= [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]
+</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>
-|GENE=
+<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>
-'''THE STRUCTURE OF YEAST PHOSPHOGLYCERATE KINASE AT 0.25 NM RESOLUTION'''
+==See Also==
+*[[Phosphoglycerate kinase 3D structures|Phosphoglycerate kinase 3D structures]]
+__TOC__
-==Overview==
+</StructureSection>
-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.
+[[Category: Large Structures]]
+[[Category: RCSB PDB Molecule of the Month]]
-==About this Structure==
-PGK is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. This structure supersedes 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]]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PGK OCA].
-==Reference==
-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://www.ncbi.nlm.nih.gov/pubmed/6765200 6765200]
-[[Category: Phosphoglycerate kinase]]
 [[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://oca.weizmann.ac.il/oca OCA ] on Sun Mar 23 16:03:10 2008''