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.

2awy

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Current revision

met-DcrH-Hr

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2awy"

@@ Line 1: / Line 1: @@
-[[Image:2awy.gif|left|200px]]
- {{Structure
+==met-DcrH-Hr==
-|PDB= 2awy |SIZE=350|CAPTION= <scene name='initialview01'>2awy</scene>, resolution 2.100&Aring;
+<StructureSection load='2awy' size='340' side='right'caption='[[2awy]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FEO:MU-OXO-DIIRON'>FEO</scene>
+<table><tr><td colspan='2'>[[2awy]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_vulgaris Desulfovibrio vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2AWY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2AWY 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=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FEO:MU-OXO-DIIRON'>FEO</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=2awy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2awy OCA], [https://pdbe.org/2awy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2awy RCSB], [https://www.ebi.ac.uk/pdbsum/2awy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2awy ProSAT]</span></td></tr>
-|RELATEDENTRY=
+</table>
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2awy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2awy OCA], [http://www.ebi.ac.uk/pdbsum/2awy PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2awy RCSB]</span>
+== Function ==
-}}
+[https://www.uniprot.org/uniprot/Q9REU3_DESVU Q9REU3_DESVU]
+== Evolutionary Conservation ==
-'''met-DcrH-Hr'''
+[[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/aw/2awy_consurf.spt"</scriptWhenChecked>
-The methyl-accepting chemotaxis protein, DcrH, from the anaerobic sulfate-reducing bacterium, Desulfovibrio vulgaris (Hildenborough), has a hemerythrin-like domain, DcrH-Hr, at its C terminus. DcrH-Hr was previously shown to contain a diiron site that binds O2, suggesting an O2-sensing function. X-ray crystal structures of diferric (met-), azido-diferric (azidomet-), and diferrous (deoxy-) DcrH-Hr reveal a "substrate tunnel" distinct from that in invertebrate hemerythrins. This tunnel is proposed to facilitate the rapid autoxidation of oxy-DcrH-Hr and suggests that sensing is triggered by O2 binding and subsequent oxidation of the diferrous active site. The N-terminal loop of DcrH-Hr is highly ordered in both met- and azidomet-DcrH-Hr but is disordered in deoxy-DcrH-Hr. These redox-dependent conformational differences presumably transduce the sensory signal of DcrH-Hr to the neighboring methylation domain in the full-length receptor. Given the putative cytoplasmic localization of its Hr-like O2-sensing domain, DcrH is proposed to serve a role in negative aerotaxis (anaerotaxis).
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
-==About this Structure==
+  </jmolCheckbox>
-AWY 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=2AWY 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=2awy ConSurf].
+<div style="clear:both"></div>
-==Reference==
+__TOC__
-Structural basis for O2 sensing by the hemerythrin-like domain of a bacterial chemotaxis protein: substrate tunnel and fluxional N terminus., Isaza CE, Silaghi-Dumitrescu R, Iyer RB, Kurtz DM Jr, Chan MK, Biochemistry. 2006 Aug 1;45(30):9023-31. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16866347 16866347]
+</StructureSection>
 [[Category: Desulfovibrio vulgaris]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Chan, M K.]]
+[[Category: Chan MK]]
-[[Category: Isaza, C E.]]
+[[Category: Isaza CE]]
-[[Category: Iyer, R B.]]
+[[Category: Iyer RB]]
-[[Category: Kurtz, D M.]]
+[[Category: Kurtz DM]]
-[[Category: Silaghi-Dumitrescu, R.]]
+[[Category: Silaghi-Dumitrescu R]]
-[[Category: hemerythrin-like oxygen sensor]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:58:25 2008''

2awy

From Proteopedia

Current revision

met-DcrH-Hr

Structural highlights

Function

Evolutionary Conservation

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox