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New page: left|200px<br /><applet load="1n2m" size="450" color="white" frame="true" align="right" spinBox="true" caption="1n2m, resolution 1.90Å" /> '''The S53A Proenzyme S...
 
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[[Image:1n2m.jpg|left|200px]]<br /><applet load="1n2m" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1n2m, resolution 1.90&Aring;" />
'''The S53A Proenzyme Structure of Methanococcus jannaschii.'''<br />


==Overview==
==The S53A Proenzyme Structure of Methanococcus jannaschii.==
The three-dimensional structure of pyruvoyl-dependent arginine, decarboxylase from Methanococcus jannaschii was determined at 1.4 A, resolution. The pyruvoyl group of arginine decarboxylase is generated by, an autocatalytic internal serinolysis reaction at Ser53 in the proenzyme, resulting in two polypeptide chains. The structure of the nonprocessing, S53A mutant was also determined. The active site of the processed enzyme, unexpectedly contained the reaction product agmatine. The crystal, structure confirms that arginine decarboxylase is a homotrimer. The, protomer fold is a four-layer alphabetabetaalpha sandwich with topology, similar to pyruvoyl-dependent histidine decarboxylase. Highly conserved, residues Asn47, Ser52, Ser53, Ile54, and Glu109 are proposed to play roles, in the self-processing reaction. Agmatine binding residues include the C, terminus of the beta chain (Ser52) from one protomer and the Asp35 side, chain and the Gly44 and Val46 carbonyl oxygen atoms from an adjacent, protomer. Glu109 is proposed to play a catalytic role in the, decarboxylation reaction.
<StructureSection load='1n2m' size='340' side='right'caption='[[1n2m]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1n2m]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1N2M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1N2M FirstGlance]. <br>
1N2M is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii] with MRD as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Arginine_decarboxylase Arginine decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.19 4.1.1.19] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1N2M 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]] 1.9&#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></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=1n2m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n2m OCA], [https://pdbe.org/1n2m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1n2m RCSB], [https://www.ebi.ac.uk/pdbsum/1n2m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1n2m ProSAT]</span></td></tr>
Pyruvoyl-dependent arginine decarboxylase from Methanococcus jannaschii: crystal structures of the self-cleaved and S53A proenzyme forms., Tolbert WD, Graham DE, White RH, Ealick SE, Structure. 2003 Mar;11(3):285-94. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12623016 12623016]
</table>
[[Category: Arginine decarboxylase]]
== Function ==
[https://www.uniprot.org/uniprot/PDAD_METJA PDAD_METJA]
== 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/n2/1n2m_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=1n2m ConSurf].
<div style="clear:both"></div>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Methanocaldococcus jannaschii]]
[[Category: Methanocaldococcus jannaschii]]
[[Category: Single protein]]
[[Category: Ealick SE]]
[[Category: Ealick, S.E.]]
[[Category: Graham DE]]
[[Category: Graham, D.E.]]
[[Category: Tolbert WD]]
[[Category: Tolbert, W.D.]]
[[Category: White RH]]
[[Category: White, R.H.]]
[[Category: MRD]]
[[Category: agmatine]]
[[Category: arginine decarboxylase]]
[[Category: pyruvate]]
[[Category: pyruvoyl group]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 21:53:50 2007''

Latest revision as of 07:51, 14 February 2024

The S53A Proenzyme Structure of Methanococcus jannaschii.

1n2m, resolution 1.90Å

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