2dsx: Difference between revisions

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[[Image:2dsx.png|left|200px]]


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==Crystal structure of rubredoxin from Desulfovibrio gigas to ultra-high 0.68 A resolution==
The line below this paragraph, containing "STRUCTURE_2dsx", creates the "Structure Box" on the page.
<StructureSection load='2dsx' size='340' side='right'caption='[[2dsx]], [[Resolution|resolution]] 0.68&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'>[[2dsx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Megalodesulfovibrio_gigas Megalodesulfovibrio gigas]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DSX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DSX 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]] 0.68&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>
{{STRUCTURE_2dsx| PDB=2dsx |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2dsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dsx OCA], [https://pdbe.org/2dsx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dsx RCSB], [https://www.ebi.ac.uk/pdbsum/2dsx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dsx ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/RUBR_MEGGA RUBR_MEGGA] Rubredoxin is a small nonheme, iron protein lacking acid-labile sulfide. Its single Fe, chelated to 4 Cys, functions as an electron acceptor and may also stabilize the conformation of the molecule.  Electron acceptor for cytoplasmic lactate dehydrogenase.
== 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/ds/2dsx_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=2dsx ConSurf].
<div style="clear:both"></div>


===Crystal structure of rubredoxin from Desulfovibrio gigas to ultra-high 0.68 A resolution===
==See Also==
 
*[[Rubredoxin 3D structures|Rubredoxin 3D structures]]
 
*[[Rubredoxin PDB structures|Rubredoxin PDB structures]]
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The line below this paragraph, {{ABSTRACT_PUBMED_16930541}}, adds the Publication Abstract to the page
</StructureSection>
(as it appears on PubMed at http://www.pubmed.gov), where 16930541 is the PubMed ID number.
[[Category: Large Structures]]
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[[Category: Megalodesulfovibrio gigas]]
{{ABSTRACT_PUBMED_16930541}}
[[Category: Chen C-J]]
 
[[Category: Huang Y-C]]
==About this Structure==
[[Category: Lin Y-H]]
2DSX is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_gigas Desulfovibrio gigas]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DSX OCA].
[[Category: Liu M-Y]]
 
==Reference==
Crystal structure of rubredoxin from Desulfovibrio gigas to ultra-high 0.68 A resolution., Chen CJ, Lin YH, Huang YC, Liu MY, Biochem Biophys Res Commun. 2006 Oct 13;349(1):79-90. Epub 2006 Aug 11. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16930541 16930541]
[[Category: Desulfovibrio gigas]]
[[Category: Single protein]]
[[Category: Chen, C J.]]
[[Category: Huang, Y C.]]
[[Category: Lin, Y H.]]
[[Category: Liu, M Y.]]
[[Category: Desulfovibrio giga]]
[[Category: Redox]]
[[Category: Rubredoxin]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 10:38:33 2008''

Latest revision as of 16:48, 13 March 2024

Crystal structure of rubredoxin from Desulfovibrio gigas to ultra-high 0.68 A resolutionCrystal structure of rubredoxin from Desulfovibrio gigas to ultra-high 0.68 A resolution

Structural highlights

2dsx is a 1 chain structure with sequence from Megalodesulfovibrio gigas. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 0.68Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

RUBR_MEGGA Rubredoxin is a small nonheme, iron protein lacking acid-labile sulfide. Its single Fe, chelated to 4 Cys, functions as an electron acceptor and may also stabilize the conformation of the molecule. Electron acceptor for cytoplasmic lactate dehydrogenase.

Evolutionary Conservation

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

See Also

2dsx, resolution 0.68Å

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