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3dyc

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{{Seed}}
 
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[[Image:3dyc.png|left|200px]]
 
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<!--
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==Structure of E322Y Alkaline Phosphatase in Complex with Inorganic Phosphate==
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The line below this paragraph, containing "STRUCTURE_3dyc", creates the "Structure Box" on the page.
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<StructureSection load='3dyc' size='340' side='right'caption='[[3dyc]], [[Resolution|resolution]] 2.30&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'>[[3dyc]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DYC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DYC FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">phoA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>
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{{STRUCTURE_3dyc| PDB=3dyc | SCENE= }}
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Alkaline_phosphatase Alkaline phosphatase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.1 3.1.3.1] </span></td></tr>
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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=3dyc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dyc OCA], [https://pdbe.org/3dyc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dyc RCSB], [https://www.ebi.ac.uk/pdbsum/3dyc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dyc 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/dy/3dyc_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=3dyc 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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Mechanistic models for biochemical systems are frequently proposed from structural data. Site-directed mutagenesis can be used to test the importance of proposed functional sites, but these data do not necessarily indicate how these sites contribute to function. In this study, we applied an alternative approach to the catalytic mechanism of alkaline phosphatase (AP), a widely studied prototypical bimetallo enzyme. A third metal ion site in AP has been suggested to provide general base catalysis, but comparison of AP with an evolutionarily related enzyme casts doubt on this model. Removal of this metal site from AP has large differential effects on reactions of cognate and promiscuous substrates, and the results are inconsistent with general base catalysis. Instead, these and additional results suggest that the third metal ion stabilizes the transferred phosphoryl group in the transition state. These results establish a new mechanistic model for this prototypical bimetallo enzyme and demonstrate the power of a comparative approach for probing biochemical function.
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===Structure of E322Y Alkaline Phosphatase in Complex with Inorganic Phosphate===
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Comparative enzymology in the alkaline phosphatase superfamily to determine the catalytic role of an active-site metal ion.,Zalatan JG, Fenn TD, Herschlag D J Mol Biol. 2008 Dec 31;384(5):1174-89. Epub 2008 Oct 2. PMID:18851975<ref>PMID:18851975</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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<div class="pdbe-citations 3dyc" style="background-color:#fffaf0;"></div>
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<!--
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_18851975}}, adds the Publication Abstract to the page
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*[[Alkaline phosphatase 3D structures|Alkaline phosphatase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 18851975 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_18851975}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Bacillus coli migula 1895]]
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3DYC is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DYC OCA].
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==Reference==
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Comparative enzymology in the alkaline phosphatase superfamily to determine the catalytic role of an active-site metal ion., Zalatan JG, Fenn TD, Herschlag D, J Mol Biol. 2008 Dec 31;384(5):1174-89. Epub 2008 Oct 2. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18851975 18851975]
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[[Category: Alkaline phosphatase]]
[[Category: Alkaline phosphatase]]
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[[Category: Escherichia coli]]
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[[Category: Large Structures]]
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[[Category: Single protein]]
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[[Category: Fenn, T D]]
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[[Category: Pdbx_ordinal=, <PDBx:audit_author.]]
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[[Category: Herschlag, D]]
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[[Category: Zalatan, J G]]
[[Category: Alpha/beta/alpha]]
[[Category: Alpha/beta/alpha]]
[[Category: Hydrolase]]
[[Category: Hydrolase]]
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[[Category: Phosphoprotein]]
[[Category: Phosphoprotein]]
[[Category: Zinc]]
[[Category: Zinc]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 10 20:33:36 2008''
 

Current revision

Structure of E322Y Alkaline Phosphatase in Complex with Inorganic Phosphate

PDB ID 3dyc

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