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[[Image:2dzd.jpg|left|200px]]


{{Structure
==Crystal structure of the biotin carboxylase domain of pyruvate carboxylase==
|PDB= 2dzd |SIZE=350|CAPTION= <scene name='initialview01'>2dzd</scene>, resolution 2.4&Aring;
<StructureSection load='2dzd' size='340' side='right'caption='[[2dzd]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND=  
<table><tr><td colspan='2'>[[2dzd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_thermodenitrificans Geobacillus thermodenitrificans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DZD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DZD FirstGlance]. <br>
|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyruvate_carboxylase Pyruvate carboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.4.1.1 6.4.1.1] </span>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
|GENE=
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2dzd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dzd OCA], [https://pdbe.org/2dzd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dzd RCSB], [https://www.ebi.ac.uk/pdbsum/2dzd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dzd ProSAT]</span></td></tr>
|DOMAIN=
</table>
|RELATEDENTRY=
== Function ==
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2dzd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dzd OCA], [http://www.ebi.ac.uk/pdbsum/2dzd PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2dzd RCSB]</span>
[https://www.uniprot.org/uniprot/Q05FZ3_GEOTD Q05FZ3_GEOTD]
}}
== 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/dz/2dzd_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=2dzd ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The biotin carboxylase (BC) domain of pyruvate carboxylase (PC) from Bacillus thermodenitrificans (BC-bPC) was crystallized in an orthorhombic form (space group P2(1)2(1)2(1)), with unit-cell parameters a = 79.6, b = 116.0, c = 115.7 A. Two BC protomers are contained in the asymmetric unit. Diffraction data were collected at 100 K and the crystal structure was solved by the molecular-replacement method and refined against reflections in the 20.0-2.4 A resolution range, giving an R factor of 0.235 and a free R factor of 0.292. The overall structure of BC-bPC is similar to those of the BC subunits of Aquifex aeolicus PC (BC-aPC) and Escherichia coli ACC (BC-eACC). The crystal structure revealed that BC-bPC forms a unique dimeric quaternary structure, which might be caused as a result of the division of the BC domain from the rest of the protein. The position of domain B in BC-bPC differs from those in other enzymes of similar structure (BC-aPC and BC-eACC).


'''Crystal structure of the biotin carboxylase domain of pyruvate carboxylase'''
Structure of the biotin carboxylase domain of pyruvate carboxylase from Bacillus thermodenitrificans.,Kondo S, Nakajima Y, Sugio S, Sueda S, Islam MN, Kondo H Acta Crystallogr D Biol Crystallogr. 2007 Aug;63(Pt 8):885-90. Epub 2007, Jul 17. PMID:17642515<ref>PMID:17642515</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 2dzd" style="background-color:#fffaf0;"></div>


==Overview==
==See Also==
The biotin carboxylase (BC) domain of pyruvate carboxylase (PC) from Bacillus thermodenitrificans (BC-bPC) was crystallized in an orthorhombic form (space group P2(1)2(1)2(1)), with unit-cell parameters a = 79.6, b = 116.0, c = 115.7 A. Two BC protomers are contained in the asymmetric unit. Diffraction data were collected at 100 K and the crystal structure was solved by the molecular-replacement method and refined against reflections in the 20.0-2.4 A resolution range, giving an R factor of 0.235 and a free R factor of 0.292. The overall structure of BC-bPC is similar to those of the BC subunits of Aquifex aeolicus PC (BC-aPC) and Escherichia coli ACC (BC-eACC). The crystal structure revealed that BC-bPC forms a unique dimeric quaternary structure, which might be caused as a result of the division of the BC domain from the rest of the protein. The position of domain B in BC-bPC differs from those in other enzymes of similar structure (BC-aPC and BC-eACC).
*[[Pyruvate carboxylase 3D structures|Pyruvate carboxylase 3D structures]]
 
== References ==
==About this Structure==
<references/>
2DZD is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Geobacillus_thermodenitrificans Geobacillus thermodenitrificans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DZD OCA].
__TOC__
 
</StructureSection>
==Reference==
Structure of the biotin carboxylase domain of pyruvate carboxylase from Bacillus thermodenitrificans., Kondo S, Nakajima Y, Sugio S, Sueda S, Islam MN, Kondo H, Acta Crystallogr D Biol Crystallogr. 2007 Aug;63(Pt 8):885-90. Epub 2007, Jul 17. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17642515 17642515]
[[Category: Geobacillus thermodenitrificans]]
[[Category: Geobacillus thermodenitrificans]]
[[Category: Pyruvate carboxylase]]
[[Category: Large Structures]]
[[Category: Single protein]]
[[Category: Islam MN]]
[[Category: Islam, M N.]]
[[Category: Kondo H]]
[[Category: Kondo, H.]]
[[Category: Kondo S]]
[[Category: Kondo, S.]]
[[Category: Nakajima Y]]
[[Category: Nakajima, Y.]]
[[Category: Sueda S]]
[[Category: Sueda, S.]]
[[Category: Sugio S]]
[[Category: Sugio, S.]]
[[Category: bacillus thermodenitrifican]]
[[Category: biotin carboxylase]]
[[Category: ligase]]
[[Category: pyruvate carboxylase]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 02:41:33 2008''

Latest revision as of 08:32, 25 October 2023

Crystal structure of the biotin carboxylase domain of pyruvate carboxylase

2dzd, resolution 2.40Å

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