This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.


Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


2nnf

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
m (Protected "2nnf" [edit=sysop:move=sysop])
Current revision (00:08, 28 December 2023) (edit) (undo)
 
(7 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2nnf.png|left|200px]]
 
-
{{STRUCTURE_2nnf| PDB=2nnf | SCENE= }}
+
==Structure of the sulfur carrier protein SoxY from Chlorobium limicola f thiosulfatophilum==
 +
<StructureSection load='2nnf' size='340' side='right'caption='[[2nnf]], [[Resolution|resolution]] 2.39&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[2nnf]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Chlorobium_limicola Chlorobium limicola]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NNF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2NNF 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]] 2.39&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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=2nnf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2nnf OCA], [https://pdbe.org/2nnf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2nnf RCSB], [https://www.ebi.ac.uk/pdbsum/2nnf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2nnf ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q8RLX2_CHLLI Q8RLX2_CHLLI]
 +
== 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/nn/2nnf_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=2nnf ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Dissimilatory oxidation of thiosulfate in the green sulfur bacterium Chlorobium limicola f. thiosulfatophilum is carried out by the ubiquitous sulfur-oxidizing (Sox) multi-enzyme system. In this system, SoxY plays a key role, functioning as the sulfur substrate-binding protein that offers its sulfur substrate, which is covalently bound to a conserved C-terminal cysteine, to another oxidizing Sox enzyme. Here, we report the crystal structures of a stand-alone SoxY protein of C. limicola f. thiosulfatophilum, solved at 2.15 A and 2.40 A resolution using X-ray diffraction data collected at 100 K and room temperature, respectively. The structure reveals a monomeric Ig-like protein, with an N-terminal alpha-helix, that oligomerizes into a tetramer via conserved contact regions between the monomers. The tetramer can be described as a dimer of dimers that exhibits one large hydrophobic contact region in each dimer and two small hydrophilic interface patches in the tetramer. At the tetramer interface patch, two conserved redox-active C-terminal cysteines form an intersubunit disulfide bridge. Intriguingly, SoxY exhibits a dimer/tetramer equilibrium that is dependent on the redox state of the cysteines and on the type of sulfur substrate component bound to them. Taken together, the dimer/tetramer equilibrium, the specific interactions between the subunits in the tetramer, and the significant conservation level of the interfaces strongly indicate that these SoxY oligomers are biologically relevant.
-
===Structure of the sulfur carrier protein SoxY from Chlorobium limicola f thiosulfatophilum===
+
X-ray crystallographic analysis of the sulfur carrier protein SoxY from Chlorobium limicola f. thiosulfatophilum reveals a tetrameric structure.,Stout J, Van Driessche G, Savvides SN, Van Beeumen J Protein Sci. 2007 Apr;16(4):589-601. Epub 2007 Feb 27. PMID:17327392<ref>PMID:17327392</ref>
-
{{ABSTRACT_PUBMED_17327392}}
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
 
+
</div>
-
==About this Structure==
+
<div class="pdbe-citations 2nnf" style="background-color:#fffaf0;"></div>
-
[[2nnf]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlorobium_limicola Chlorobium limicola]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2NNF OCA].
+
== References ==
-
 
+
<references/>
-
==Reference==
+
__TOC__
-
<ref group="xtra">PMID:017327392</ref><references group="xtra"/>
+
</StructureSection>
[[Category: Chlorobium limicola]]
[[Category: Chlorobium limicola]]
-
[[Category: Beeumen, J Van.]]
+
[[Category: Large Structures]]
-
[[Category: Driessche, G Van.]]
+
[[Category: Savvides SN]]
-
[[Category: Savvides, S N.]]
+
[[Category: Stout J]]
-
[[Category: Stout, J.]]
+
[[Category: Van Beeumen J]]
-
[[Category: Beta sandwich]]
+
[[Category: Van Driessche G]]
-
[[Category: Green sulfur bacterium]]
+
-
[[Category: Ligand binding protein]]
+
-
[[Category: Sox]]
+
-
[[Category: Sulfur binding protein]]
+

Current revision

Structure of the sulfur carrier protein SoxY from Chlorobium limicola f thiosulfatophilum

PDB ID 2nnf

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools