2yxx: Difference between revisions

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[[Image:2yxx.gif|left|200px]]


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==Crystal structure analysis of Diaminopimelate decarboxylate (lysA)==
The line below this paragraph, containing "STRUCTURE_2yxx", creates the "Structure Box" on the page.
<StructureSection load='2yxx' size='340' side='right'caption='[[2yxx]], [[Resolution|resolution]] 1.70&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'>[[2yxx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thema Thema]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YXX OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2YXX FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
-->
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
{{STRUCTURE_2yxx|  PDB=2yxx  |  SCENE= }}
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Diaminopimelate_decarboxylase Diaminopimelate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.20 4.1.1.20] </span></td></tr>
 
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2yxx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2yxx OCA], [http://pdbe.org/2yxx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2yxx RCSB], [http://www.ebi.ac.uk/pdbsum/2yxx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2yxx ProSAT], [http://www.topsan.org/Proteins/RSGI/2yxx TOPSAN]</span></td></tr>
'''Crystal structure analysis of Diaminopimelate decarboxylate (lysA)'''
</table>
 
== Function ==
 
[[http://www.uniprot.org/uniprot/DCDA_THEMA DCDA_THEMA]] Specifically catalyzes the decarboxylation of meso-diaminopimelate (meso-DAP) to L-lysine (By similarity).[HAMAP-Rule:MF_02120]
==About this Structure==
== Evolutionary Conservation ==
2YXX is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YXX OCA].  
[[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/yx/2yxx_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=2yxx ConSurf].
<div style="clear:both"></div>
__TOC__
</StructureSection>
[[Category: Diaminopimelate decarboxylase]]
[[Category: Diaminopimelate decarboxylase]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Thermotoga maritima]]
[[Category: Thema]]
[[Category: Bessho, Y.]]
[[Category: Bessho, Y]]
[[Category: Nakamura, Y.]]
[[Category: Nakamura, Y]]
[[Category: Padmanabhan, B.]]
[[Category: Padmanabhan, B]]
[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
[[Category: Structural genomic]]
[[Category: Yokoyama, S.]]
[[Category: Yokoyama, S]]
[[Category: Lyase]]
[[Category: Lyase]]
[[Category: National project on protein structural and functional analyse]]
[[Category: National project on protein structural and functional analyse]]
[[Category: Nppsfa]]
[[Category: Nppsfa]]
[[Category: Riken structural genomics/proteomics initiative]]
[[Category: Rsgi]]
[[Category: Rsgi]]
[[Category: Structural genomic]]
[[Category: Tim beta/alpha barrel fold]]
[[Category: Tim beta/alpha barrel fold]]
[[Category: Tm1517]]
[[Category: Tm1517]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 19:40:14 2008''

Latest revision as of 16:07, 22 July 2020

Crystal structure analysis of Diaminopimelate decarboxylate (lysA)Crystal structure analysis of Diaminopimelate decarboxylate (lysA)

Structural highlights

2yxx is a 1 chain structure with sequence from Thema. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
NonStd Res:
Activity:Diaminopimelate decarboxylase, with EC number 4.1.1.20
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT, TOPSAN

Function

[DCDA_THEMA] Specifically catalyzes the decarboxylation of meso-diaminopimelate (meso-DAP) to L-lysine (By similarity).[HAMAP-Rule:MF_02120]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

2yxx, resolution 1.70Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA
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