1yp3

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{{Seed}}
 
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[[Image:1yp3.png|left|200px]]
 
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==Crystal structure of potato tuber ADP-glucose pyrophosphorylase in complex with ATP==
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The line below this paragraph, containing "STRUCTURE_1yp3", creates the "Structure Box" on the page.
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<StructureSection load='1yp3' size='340' side='right'caption='[[1yp3]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1yp3]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Solanum_tuberosum Solanum tuberosum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YP3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YP3 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.6&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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{{STRUCTURE_1yp3| PDB=1yp3 | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1yp3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yp3 OCA], [https://pdbe.org/1yp3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yp3 RCSB], [https://www.ebi.ac.uk/pdbsum/1yp3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yp3 ProSAT]</span></td></tr>
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</table>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yp/1yp3_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=1yp3 ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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ADP-glucose pyrophosphorylase catalyzes the first committed and rate-limiting step in starch biosynthesis in plants and glycogen biosynthesis in bacteria. It is the enzymatic site for regulation of storage polysaccharide accumulation in plants and bacteria, being allosterically activated or inhibited by metabolites of energy flux. We report the first atomic resolution structure of ADP-glucose pyrophosphorylase. Crystals of potato tuber ADP-glucose pyrophosphorylase alpha subunit were grown in high concentrations of sulfate, resulting in the sulfate-bound, allosterically inhibited form of the enzyme. The N-terminal catalytic domain resembles a dinucleotide-binding Rossmann fold and the C-terminal domain adopts a left-handed parallel beta helix that is involved in cooperative allosteric regulation and a unique oligomerization. We also report structures of the enzyme in complex with ATP and ADP-glucose. Communication between the regulator-binding sites and the active site is both subtle and complex and involves several distinct regions of the enzyme including the N-terminus, the glucose-1-phosphate-binding site, and the ATP-binding site. These structures provide insights into the mechanism for catalysis and allosteric regulation of the enzyme.
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===Crystal structure of potato tuber ADP-glucose pyrophosphorylase in complex with ATP===
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Crystal structure of potato tuber ADP-glucose pyrophosphorylase.,Jin X, Ballicora MA, Preiss J, Geiger JH EMBO J. 2005 Feb 23;24(4):694-704. Epub 2005 Feb 3. PMID:15692569<ref>PMID:15692569</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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The line below this paragraph, {{ABSTRACT_PUBMED_15692569}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 1yp3" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 15692569 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_15692569}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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1YP3 is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Solanum_tuberosum Solanum tuberosum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YP3 OCA].
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==Reference==
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<ref group="xtra">PMID:15692569</ref><references group="xtra"/>
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[[Category: Glucose-1-phosphate adenylyltransferase]]
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[[Category: Solanum tuberosum]]
[[Category: Solanum tuberosum]]
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[[Category: Ballicora, M A.]]
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[[Category: Ballicora MA]]
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[[Category: Geiger, J H.]]
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[[Category: Geiger JH]]
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[[Category: Jin, X.]]
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[[Category: Jin X]]
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[[Category: Preiss, J.]]
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[[Category: Preiss J]]
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[[Category: Adp-glucose pyrophosphorylase]]
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[[Category: Adp-glucose synthase]]
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[[Category: Agpase b]]
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[[Category: Alpha-d-glucose-1-phosphate adenyl transferase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 20:06:37 2009''
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Current revision

Crystal structure of potato tuber ADP-glucose pyrophosphorylase in complex with ATP

PDB ID 1yp3

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