2ox5

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="2ox5" size="350" color="white" frame="true" align="right" spinBox="true" caption="2ox5, resolution 1.980&Aring;" /> '''The SoxYZ complex o...)
Current revision (09:24, 6 November 2024) (edit) (undo)
 
(13 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2ox5.jpg|left|200px]]<br /><applet load="2ox5" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="2ox5, resolution 1.980&Aring;" />
 
-
'''The SoxYZ complex of Paracoccus pantotrophus'''<br />
 
-
==Overview==
+
==The SoxYZ complex of Paracoccus pantotrophus==
-
The bacterial Sox (sulfur oxidizing) system allows the utilization of, inorganic sulfur compounds in energy metabolism. Central to this process, is the SoxYZ complex that carries the pathway intermediates on a cysteine, residue near the C terminus of SoxY. Crystal structures have been, determined for Paracoccus pantotrophus SoxYZ with the carrier cysteine in, the underivatized state, conjugated to the polysulfide mimic, beta-mercaptoethanol, and as the sulfonate adduct pathway intermediate., The carrier cysteine is located on a peptide swinging arm and is bracketed, on either side by diglycine dipeptides acting as molecular universal, joints. This structure provides a novel solution to the requirement that, the cysteine-bound intermediates be able to access and orient themselves, within the active sites of multiple partner enzymes. Adjacent to the, swinging arm there is a conserved, deep, apolar pocket into which the, beta-mercaptoethanol adduct extends. This pocket would be well suited to a, role in protecting labile pathway intermediates from adventitious, reactions.
+
<StructureSection load='2ox5' size='340' side='right'caption='[[2ox5]], [[Resolution|resolution]] 1.98&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[2ox5]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Paracoccus_denitrificans Paracoccus denitrificans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OX5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OX5 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]] 1.98&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CME:S,S-(2-HYDROXYETHYL)THIOCYSTEINE'>CME</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=2ox5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ox5 OCA], [https://pdbe.org/2ox5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ox5 RCSB], [https://www.ebi.ac.uk/pdbsum/2ox5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ox5 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q9LCU8_PARDE Q9LCU8_PARDE]
 +
== 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/ox/2ox5_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2ox5 ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The bacterial Sox (sulfur oxidizing) system allows the utilization of inorganic sulfur compounds in energy metabolism. Central to this process is the SoxYZ complex that carries the pathway intermediates on a cysteine residue near the C terminus of SoxY. Crystal structures have been determined for Paracoccus pantotrophus SoxYZ with the carrier cysteine in the underivatized state, conjugated to the polysulfide mimic beta-mercaptoethanol, and as the sulfonate adduct pathway intermediate. The carrier cysteine is located on a peptide swinging arm and is bracketed on either side by diglycine dipeptides acting as molecular universal joints. This structure provides a novel solution to the requirement that the cysteine-bound intermediates be able to access and orient themselves within the active sites of multiple partner enzymes. Adjacent to the swinging arm there is a conserved, deep, apolar pocket into which the beta-mercaptoethanol adduct extends. This pocket would be well suited to a role in protecting labile pathway intermediates from adventitious reactions.
-
==About this Structure==
+
The SoxYZ complex carries sulfur cycle intermediates on a peptide swinging arm.,Sauve V, Bruno S, Berks BC, Hemmings AM J Biol Chem. 2007 Aug 10;282(32):23194-204. Epub 2007 May 23. PMID:17522046<ref>PMID:17522046</ref>
-
2OX5 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Paracoccus_denitrificans Paracoccus denitrificans] with <scene name='pdbligand=ACT:'>ACT</scene>, <scene name='pdbligand=SO4:'>SO4</scene> and <scene name='pdbligand=EDO:'>EDO</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OX5 OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
The SoxYZ Complex Carries Sulfur Cycle Intermediates on a Peptide Swinging Arm., Sauve V, Bruno S, Berks BC, Hemmings AM, J Biol Chem. 2007 Aug 10;282(32):23194-204. Epub 2007 May 23. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17522046 17522046]
+
</div>
 +
<div class="pdbe-citations 2ox5" style="background-color:#fffaf0;"></div>
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
[[Category: Paracoccus denitrificans]]
[[Category: Paracoccus denitrificans]]
-
[[Category: Protein complex]]
+
[[Category: Berks BC]]
-
[[Category: Berks, B.C.]]
+
[[Category: Bruno S]]
-
[[Category: Bruno, S.]]
+
[[Category: Hemmings AM]]
-
[[Category: Hemmings, A.M.]]
+
[[Category: Sauve V]]
-
[[Category: Sauve, V.]]
+
-
[[Category: ACT]]
+
-
[[Category: EDO]]
+
-
[[Category: SO4]]
+
-
[[Category: immunoglobulin-like beta-sandwich fold]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 13:56:56 2008''
+

Current revision

The SoxYZ complex of Paracoccus pantotrophus

PDB ID 2ox5

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2ox5"
Personal tools