1ryt: Difference between revisions

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[[Image:1ryt.gif|left|200px]]


{{Structure
==RUBRERYTHRIN==
|PDB= 1ryt |SIZE=350|CAPTION= <scene name='initialview01'>1ryt</scene>, resolution 2.1&Aring;
<StructureSection load='1ryt' size='340' side='right'caption='[[1ryt]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND= <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>
<table><tr><td colspan='2'>[[1ryt]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_str._Hildenborough Desulfovibrio vulgaris str. Hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RYT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RYT FirstGlance]. <br>
|ACTIVITY=  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
|GENE=  
<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>
|DOMAIN=
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ryt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ryt OCA], [https://pdbe.org/1ryt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ryt RCSB], [https://www.ebi.ac.uk/pdbsum/1ryt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ryt ProSAT]</span></td></tr>
|RELATEDENTRY=
</table>
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ryt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ryt OCA], [http://www.ebi.ac.uk/pdbsum/1ryt PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1ryt RCSB]</span>
== Function ==
}}
[https://www.uniprot.org/uniprot/RUBY_DESVH RUBY_DESVH] May provide oxidative stress protection via catalytic reduction of intracellular hydrogen peroxide (By similarity).
 
== Evolutionary Conservation ==
'''RUBRERYTHRIN'''
[[Image:Consurf_key_small.gif|200px|right]]
 
Check<jmol>
 
  <jmolCheckbox>
==Overview==
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ry/1ryt_consurf.spt"</scriptWhenChecked>
We have determined the structure of rubrerythrin, a non-haem iron protein from the anaerobic sulphate-reducing bacterium, Desulfovibrio vulgaris (Hildenborough), by X-ray crystallography. The structure reveals a tetramer of two-domain subunits. Each subunit contains a four-helix bundle surrounding a diiron-oxo site and a C-terminal rubredoxin-like FeS4 domain. The diiron-oxo site contains a larger number of carboxylate ligands and a higher degree of solvent exposure than do those in other diiron-oxo proteins. The four-helix bundle of rubrerythrin closely resembles those of the ferritin and bacterioferritin subunits, suggesting a relationship among these proteins-consistent with the recently demonstrated ferroxidase activity of rubrerythrin.
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
 
    <text>to colour the structure by Evolutionary Conservation</text>
==About this Structure==
  </jmolCheckbox>
1RYT is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_vulgaris Desulfovibrio vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RYT OCA].  
</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=1ryt ConSurf].
 
<div style="clear:both"></div>
==Reference==
__TOC__
The structure of Desulfovibrio vulgaris rubrerythrin reveals a unique combination of rubredoxin-like FeS4 and ferritin-like diiron domains., deMare F, Kurtz DM Jr, Nordlund P, Nat Struct Biol. 1996 Jun;3(6):539-46. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8646540 8646540]
</StructureSection>
[[Category: Desulfovibrio vulgaris]]
[[Category: Desulfovibrio vulgaris str. Hildenborough]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Demare, F.]]
[[Category: Demare F]]
[[Category: Kurtz, D M.]]
[[Category: Kurtz DM]]
[[Category: Nordlund, P.]]
[[Category: Nordlund P]]
[[Category: electron transport]]
[[Category: ferroxidase]]
[[Category: iron]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:34:54 2008''
Retrieved from "https://proteopedia.org/1ryt"