2vpy

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:03, 9 May 2024) (edit) (undo)
 
(9 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2vpy.jpg|left|200px]]
 
-
<!--
+
==Polysulfide reductase with bound quinone inhibitor, pentachlorophenol (PCP)==
-
The line below this paragraph, containing "STRUCTURE_2vpy", creates the "Structure Box" on the page.
+
<StructureSection load='2vpy' size='340' side='right'caption='[[2vpy]], [[Resolution|resolution]] 2.50&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'>[[2vpy]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB27 Thermus thermophilus HB27]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VPY 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]] 2.5&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=MO:MOLYBDENUM+ATOM'>MO</scene>, <scene name='pdbligand=PCI:PENTACHLOROPHENOL'>PCI</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
-
{{STRUCTURE_2vpy| PDB=2vpy | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2vpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vpy OCA], [https://pdbe.org/2vpy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vpy RCSB], [https://www.ebi.ac.uk/pdbsum/2vpy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vpy ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q72LA4_THET2 Q72LA4_THET2]
 +
== 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/vp/2vpy_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=2vpy ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Bacterial polysulfide reductase (PsrABC) is an integral membrane protein complex responsible for quinone-coupled reduction of polysulfide, a process important in extreme environments such as deep-sea vents and hot springs. We determined the structure of polysulfide reductase from Thermus thermophilus at 2.4-A resolution, revealing how the PsrA subunit recognizes and reduces its unique polyanionic substrate. The integral membrane subunit PsrC was characterized using the natural substrate menaquinone-7 and inhibitors, providing a comprehensive representation of a quinone binding site and revealing the presence of a water-filled cavity connecting the quinone binding site on the periplasmic side to the cytoplasm. These results suggest that polysulfide reductase could be a key energy-conserving enzyme of the T. thermophilus respiratory chain, using polysulfide as the terminal electron acceptor and pumping protons across the membrane via a previously unknown mechanism.
-
'''POLYSULFIDE REDUCTASE WITH BOUND QUINONE INHIBITOR, PENTACHLOROPHENOL (PCP)'''
+
Molecular mechanism of energy conservation in polysulfide respiration.,Jormakka M, Yokoyama K, Yano T, Tamakoshi M, Akimoto S, Shimamura T, Curmi P, Iwata S Nat Struct Mol Biol. 2008 Jul;15(7):730-7. Epub 2008 Jun 8. PMID:18536726<ref>PMID:18536726</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
==About this Structure==
+
</div>
-
2VPY is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VPY OCA].
+
<div class="pdbe-citations 2vpy" style="background-color:#fffaf0;"></div>
-
[[Category: Protein complex]]
+
== References ==
-
[[Category: Thermus thermophilus]]
+
<references/>
-
[[Category: Akimoto, S.]]
+
__TOC__
-
[[Category: Curmi, P.]]
+
</StructureSection>
-
[[Category: Iwata, S.]]
+
[[Category: Large Structures]]
-
[[Category: Jormakka, M.]]
+
[[Category: Thermus thermophilus HB27]]
-
[[Category: Shimamura, T.]]
+
[[Category: Akimoto S]]
-
[[Category: Tamakoshi, M.]]
+
[[Category: Curmi P]]
-
[[Category: Yano, T.]]
+
[[Category: Iwata S]]
-
[[Category: Yokoyama, K.]]
+
[[Category: Jormakka M]]
-
[[Category: 4fe-4]]
+
[[Category: Shimamura T]]
-
[[Category: Fe4s4]]
+
[[Category: Tamakoshi M]]
-
[[Category: Integral membrane protein]]
+
[[Category: Yano T]]
-
[[Category: Iron]]
+
[[Category: Yokoyama K]]
-
[[Category: Iron sulfur cluster]]
+
-
[[Category: Iron-sulfur]]
+
-
[[Category: Metal-binding]]
+
-
[[Category: Mgd]]
+
-
[[Category: Molybdenum]]
+
-
[[Category: Molybdopterin]]
+
-
[[Category: Molybdopterin guanine dinucleotide]]
+
-
[[Category: Mpt]]
+
-
[[Category: Oxidoreductase]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 11 10:45:38 2008''
+

Current revision

Polysulfide reductase with bound quinone inhibitor, pentachlorophenol (PCP)

PDB ID 2vpy

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/2vpy"
Personal tools