3f4n: Difference between revisions

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{{Seed}}
[[Image:3f4n.png|left|200px]]


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==Crystal Structure of Pyridoxal Phosphate Biosynthetic Protein PdxJ from Yersinia pestis==
The line below this paragraph, containing "STRUCTURE_3f4n", creates the "Structure Box" on the page.
<StructureSection load='3f4n' size='340' side='right'caption='[[3f4n]], [[Resolution|resolution]] 2.40&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'>[[3f4n]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Yersinia_pestis Yersinia pestis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F4N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3F4N 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]] 2.402&#8491;</td></tr>
-->
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PXP:PYRIDOXINE-5-PHOSPHATE'>PXP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
{{STRUCTURE_3f4n|  PDB=3f4n  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3f4n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f4n OCA], [https://pdbe.org/3f4n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3f4n RCSB], [https://www.ebi.ac.uk/pdbsum/3f4n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3f4n ProSAT], [https://www.topsan.org/Proteins/CSGID/3f4n TOPSAN]</span></td></tr>
 
</table>
===Crystal Structure of Pyridoxal Phosphate Biosynthetic Protein PdxJ from Yersinia pestis===
== Function ==
 
[https://www.uniprot.org/uniprot/PDXJ_YERPE PDXJ_YERPE] Catalyzes the complicated ring closure reaction between the two acyclic compounds 1-deoxy-D-xylulose-5-phosphate (DXP) and 3-amino-2-oxopropyl phosphate (1-amino-acetone-3-phosphate or AAP) to form pyridoxine 5'-phosphate (PNP) and inorganic phosphate.
 
== Evolutionary Conservation ==
==About this Structure==
[[Image:Consurf_key_small.gif|200px|right]]
3F4N is a 8 chains structure of sequences from [http://en.wikipedia.org/wiki/Yersinia_pestis Yersinia pestis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F4N OCA].  
Check<jmol>
[[Category: Pyridoxine 5'-phosphate synthase]]
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/f4/3f4n_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=3f4n ConSurf].
<div style="clear:both"></div>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Yersinia pestis]]
[[Category: Yersinia pestis]]
[[Category: Anderson, W F.]]
[[Category: Anderson WF]]
[[Category: CSGID, Center for Structural Genomics of Infectious Diseases.]]
[[Category: Joachimiak A]]
[[Category: Joachimiak, A.]]
[[Category: Kim Y]]
[[Category: Kim, Y.]]
[[Category: Maltseva N]]
[[Category: Maltseva, N.]]
[[Category: Stam J]]
[[Category: Stam, J.]]
[[Category: Biosynthetic protein]]
[[Category: Center for structural genomics of infectious disease]]
[[Category: Csgid]]
[[Category: Cytoplasm]]
[[Category: National project on protein structural and functional analyse]]
[[Category: Nppsfa]]
[[Category: Octamer]]
[[Category: Pyridoxine biosynthesis]]
[[Category: Structural genomic]]
[[Category: Structural genomics of national institute of allergy and infectious disease]]
[[Category: Tim barrel]]
[[Category: Transferase]]
 
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Retrieved from "https://proteopedia.org/3f4n"