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


{{Structure
==Crystal structure analysis of Diaminopimelate decarboxylate (lysA)==
|PDB= 2yxx |SIZE=350|CAPTION= <scene name='initialview01'>2yxx</scene>, resolution 1.70&Aring;
<StructureSection load='2yxx' size='340' side='right'caption='[[2yxx]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND= <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5&#39;-PHOSPHATE'>PLP</scene>
<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>
|ACTIVITY= <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='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>
|GENE=  
<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>
|DOMAIN=
<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>
|RELATEDENTRY=
<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>
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2yxx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2yxx OCA], [http://www.ebi.ac.uk/pdbsum/2yxx PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2yxx RCSB]</span>
</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]
'''Crystal structure analysis of Diaminopimelate decarboxylate (lysA)'''
== Evolutionary Conservation ==
 
[[Image:Consurf_key_small.gif|200px|right]]
 
Check<jmol>
==About this Structure==
  <jmolCheckbox>
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].  
    <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: Tim beta/alpha barrel fold]]
[[Category: structural genomic]]
[[Category: Tm1517]]
[[Category: tim beta/alpha barrel fold]]
[[Category: tm1517]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:16:31 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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