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New page: left|200px<br /><applet load="1znn" size="450" color="white" frame="true" align="right" spinBox="true" caption="1znn, resolution 2.20Å" /> '''Structure of the syn...
 
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[[Image:1znn.gif|left|200px]]<br /><applet load="1znn" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1znn, resolution 2.20&Aring;" />
'''Structure of the synthase subunit of PLP synthase'''<br />


==Overview==
==Structure of the synthase subunit of PLP synthase==
Pyridoxal 5'-phosphate (PLP, vitamin B6), a cofactor in many enzymatic, reactions, has two distinct biosynthetic routes, which do not coexist in, any organism. Two proteins, known as PdxS and PdxT, together form a PLP, synthase in plants, fungi, archaea, and some eubacteria. PLP synthase is a, heteromeric glutamine amidotransferase in which PdxT produces ammonia from, glutamine and PdxS combines ammonia with five- and three-carbon, phosphosugars to form PLP. In the 2.2-A crystal structure, PdxS is a, cylindrical dodecamer of subunits having the classic (beta/alpha)8 barrel, fold. PdxS subunits form two hexameric rings with the active sites, positioned on the inside. The hexamer and dodecamer forms coexist in, solution. A novel phosphate-binding site is suggested by bound sulfate., The sulfate and another bound molecule, methyl pentanediol, were used to, model the substrate ribulose 5-phosphate, and to propose catalytic roles, for residues in the active site. The distribution of conserved surfaces in, the PdxS dodecamer was used to predict a docking site for the glutaminase, partner, PdxT.
<StructureSection load='1znn' size='340' side='right'caption='[[1znn]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1znn]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZNN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZNN FirstGlance]. <br>
1ZNN is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus] with SO4 and MRD as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1ZNN OCA].
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1znn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1znn OCA], [https://pdbe.org/1znn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1znn RCSB], [https://www.ebi.ac.uk/pdbsum/1znn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1znn ProSAT]</span></td></tr>
A new arrangement of (beta/alpha)8 barrels in the synthase subunit of PLP synthase., Zhu J, Burgner JW, Harms E, Belitsky BR, Smith JL, J Biol Chem. 2005 Jul 29;280(30):27914-23. Epub 2005 May 23. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15911615 15911615]
</table>
== Function ==
[https://www.uniprot.org/uniprot/PDXS_GEOKA PDXS_GEOKA] Involved in the production of pyridoxal phosphate, probably by incorporating ammonia into the pyridine ring.[HAMAP-Rule:MF_01824]
== 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/zn/1znn_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=1znn ConSurf].
<div style="clear:both"></div>
__TOC__
</StructureSection>
[[Category: Geobacillus stearothermophilus]]
[[Category: Geobacillus stearothermophilus]]
[[Category: Protein complex]]
[[Category: Large Structures]]
[[Category: Belitsky, B.R.]]
[[Category: Belitsky BR]]
[[Category: Burgner, J.W.]]
[[Category: Burgner JW]]
[[Category: Harms, E.]]
[[Category: Harms E]]
[[Category: Smith, J.L.]]
[[Category: Smith JL]]
[[Category: Zhu, J.]]
[[Category: Zhu J]]
[[Category: MRD]]
[[Category: SO4]]
[[Category: tim barrel]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 07:33:28 2007''

Latest revision as of 09:06, 14 February 2024

Structure of the synthase subunit of PLP synthase

1znn, resolution 2.20Å

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