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New page: left|200px<br /><applet load="1yvy" size="450" color="white" frame="true" align="right" spinBox="true" caption="1yvy, resolution 2.35Å" /> '''Crystal strucutre of...
 
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[[Image:1yvy.gif|left|200px]]<br /><applet load="1yvy" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1yvy, resolution 2.35&Aring;" />
'''Crystal strucutre of Anaerobiospirillum succiniciproducens phosphoenolpyruvate carboxykinase'''<br />


==Overview==
==Crystal structure of Anaerobiospirillum succiniciproducens phosphoenolpyruvate carboxykinase==
The 2.2 Angstroms resolution crystal structure of the enzyme, phosphoenolpyruvate carboxykinase (PCK) from the bacterium, Anaerobiospirillum succiniciproducens complexed with ATP, Mg(2+), Mn(2+), and the transition state analogue oxalate has been solved. The 2.4, Angstroms resolution native structure of A. succiniciproducens PCK has, also been determined. It has been found that upon binding of substrate, PCK undergoes a conformational change. Two domains of the molecule fold, towards each other, with the substrates and metal ions held in a cleft, formed between the two domains. This domain movement is believed to, accelerate the reaction PCK catalyzes by forcing bulk solvent molecules, out of the active site. Although the crystal structure of A., succiniciproducens PCK with bound substrate and metal ions is related to, the structures of PCK from Escherichia coli and Trypanosoma cruzi, it is, the first crystal structure from this class of enzymes that clearly shows, an important surface loop (residues 383-397) from the C-terminal domain, hydrogen bonding with the peptide backbone of the active site residue, Arg60. The interaction between the surface loop and the active site, backbone, which is a parallel beta-sheet, seems to be a feature unique of, A. succiniciproducens PCK. The association between the loop and the active, site is the third type of interaction found in PCK that is thought to play, a part in the domain closure. This loop also appears to help accelerate, catalysis by functioning as a 'lid' that shields water molecules from the, active site.
<StructureSection load='1yvy' size='340' side='right'caption='[[1yvy]], [[Resolution|resolution]] 2.35&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1yvy]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Anaerobiospirillum_succiniciproducens Anaerobiospirillum succiniciproducens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YVY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YVY FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.35&#8491;</td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1yvy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yvy OCA], [https://pdbe.org/1yvy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yvy RCSB], [https://www.ebi.ac.uk/pdbsum/1yvy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yvy ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/PCKA_ANASU PCKA_ANASU] Involved in gluconeogenesis. Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) through direct phosphoryl transfer between the nucleoside triphosphate and OAA (By similarity).
== 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/yv/1yvy_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=1yvy ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1YVY is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Anaerobiospirillum_succiniciproducens Anaerobiospirillum succiniciproducens]. Active as [http://en.wikipedia.org/wiki/Phosphoenolpyruvate_carboxykinase_(ATP) Phosphoenolpyruvate carboxykinase (ATP)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.49 4.1.1.49] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1YVY OCA].
*[[Phosphoenolpyruvate carboxykinase 3D structures|Phosphoenolpyruvate carboxykinase 3D structures]]
 
__TOC__
==Reference==
</StructureSection>
Crystal structure of Anaerobiospirillum succiniciproducens PEP carboxykinase reveals an important active site loop., Cotelesage JJ, Prasad L, Zeikus JG, Laivenieks M, Delbaere LT, Int J Biochem Cell Biol. 2005 Sep;37(9):1829-37. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15890557 15890557]
[[Category: Anaerobiospirillum succiniciproducens]]
[[Category: Anaerobiospirillum succiniciproducens]]
[[Category: Phosphoenolpyruvate carboxykinase (ATP)]]
[[Category: Large Structures]]
[[Category: Single protein]]
[[Category: Cotelesage JJ]]
[[Category: Cotelesage, J.J.]]
[[Category: Delbaere LT]]
[[Category: Delbaere, L.T.]]
[[Category: Laivenieks M]]
[[Category: Laivenieks, M.]]
[[Category: Prasad L]]
[[Category: Prasad, L.]]
[[Category: Zeikus JG]]
[[Category: Zeikus, J.G.]]
[[Category: domain movement]]
[[Category: kinase]]
[[Category: p-loop]]
[[Category: succinate]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 07:05:30 2007''

Latest revision as of 09:00, 14 February 2024

Crystal structure of Anaerobiospirillum succiniciproducens phosphoenolpyruvate carboxykinase

1yvy, resolution 2.35Å

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