2dzx: Difference between revisions

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


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==Structure of mutant tryptophan synthase alpha-subunit (E131-132A) from a hyperthermophile, Pyrococcus furiosus==
The line below this paragraph, containing "STRUCTURE_2dzx", creates the "Structure Box" on the page.
<StructureSection load='2dzx' size='340' side='right'caption='[[2dzx]], [[Resolution|resolution]] 2.40&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'>[[2dzx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus Pyrococcus furiosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DZX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DZX FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</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>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2dzx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dzx OCA], [https://pdbe.org/2dzx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dzx RCSB], [https://www.ebi.ac.uk/pdbsum/2dzx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dzx ProSAT], [https://www.topsan.org/Proteins/RSGI/2dzx TOPSAN]</span></td></tr>
{{STRUCTURE_2dzx| PDB=2dzx |  SCENE= }}
</table>
== Function ==
[https://www.uniprot.org/uniprot/TRPA_PYRFU TRPA_PYRFU] The alpha subunit is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate.
== 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/2dzx_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=2dzx ConSurf].
<div style="clear:both"></div>


'''Structure of mutant tryptophan synthase alpha-subunit (E131-132A) from a hyperthermophile, Pyrococcus furiosus'''
==See Also==
 
*[[Tryptophan synthase 3D structures|Tryptophan synthase 3D structures]]
 
__TOC__
==Overview==
</StructureSection>
The structure of the tryptophan synthase alpha-subunit from Pyrococcus furiosus was determined by x-ray analysis at 2.0-A resolution, and its stability was examined by differential scanning calorimetry. Although the structure of the tryptophan synthase alpha(2)beta(2) complex from Salmonella typhimurium has been already determined, this is the first report of the structure of the alpha-subunit alone. The alpha-subunit from P. furiosus (Pf-alpha-subunit) lacked 12 and 6 residues at the N and C termini, respectively, and one residue each in two loop regions as compared with that from S. typhimurium (St-alpha-subunit), resulting in the absence of an N-terminal helix and the shortening of a C-terminal helix. The structure of the Pf-alpha-subunit was essentially similar to that of the St-alpha-subunit in the alpha(2)beta(2) complex. The differences between both structures were discussed in connection with the higher stability of the Pf-alpha-subunit and the complex formation of the alpha- and beta-subunits. Calorimetric results indicated that the Pf-alpha-subunit has extremely high thermostability and that its higher stability is caused by an entropic effect. On the basis of structural information of both proteins, we analyzed the contributions of each stabilization factor and could conclude that hydrophobic interactions in the protein interior do not contribute to the higher stability of the Pf-alpha-subunit. Rather, the increase in ion pairs, decrease in cavity volume, and entropic effects due to shortening of the polypeptide chain play important roles in extremely high stability in Pf-alpha-subunit.
[[Category: Large Structures]]
 
==About this Structure==
2DZX is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Pyrococcus_furiosus Pyrococcus furiosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DZX OCA].
 
==Reference==
Entropic stabilization of the tryptophan synthase alpha-subunit from a hyperthermophile, Pyrococcus furiosus. X-ray analysis and calorimetry., Yamagata Y, Ogasahara K, Hioki Y, Lee SJ, Nakagawa A, Nakamura H, Ishida M, Kuramitsu S, Yutani K, J Biol Chem. 2001 Apr 6;276(14):11062-71. Epub 2000 Dec 15. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11118452 11118452]
[[Category: Pyrococcus furiosus]]
[[Category: Single protein]]
[[Category: Tryptophan synthase]]
[[Category: Ogasahara, K.]]
[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
[[Category: Yamagata, Y.]]
[[Category: Yutani, K.]]
[[Category: Calorimetry]]
[[Category: Hyperthermophile]]
[[Category: Lyase]]
[[Category: National project on protein structural and functional analyse]]
[[Category: Nppsfa]]
[[Category: Pyrococcus furiosus]]
[[Category: Pyrococcus furiosus]]
[[Category: Riken structural genomics/proteomics initiative]]
[[Category: Ogasahara K]]
[[Category: Rsgi]]
[[Category: Yamagata Y]]
[[Category: Stability]]
[[Category: Yutani K]]
[[Category: Structural genomic]]
[[Category: Tryptophan synthase alpha-subunit]]
[[Category: X-ray analysis]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 01:41:12 2008''

Latest revision as of 11:32, 25 October 2023

Structure of mutant tryptophan synthase alpha-subunit (E131-132A) from a hyperthermophile, Pyrococcus furiosusStructure of mutant tryptophan synthase alpha-subunit (E131-132A) from a hyperthermophile, Pyrococcus furiosus

Structural highlights

2dzx is a 2 chain structure with sequence from Pyrococcus furiosus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.4Å
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT, TOPSAN

Function

TRPA_PYRFU The alpha subunit is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate.

Evolutionary Conservation

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

See Also

2dzx, resolution 2.40Å

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