2arl

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:17, 15 November 2023) (edit) (undo)
 
(10 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:2arl.png|left|200px]]
 
-
<!--
+
==The 2.0 angstroms crystal structure of a pocilloporin at pH 3.5: the structural basis for the linkage between color transition and halide binding==
-
The line below this paragraph, containing "STRUCTURE_2arl", creates the "Structure Box" on the page.
+
<StructureSection load='2arl' size='340' side='right'caption='[[2arl]], [[Resolution|resolution]] 2.00&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'>[[2arl]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Montipora_efflorescens Montipora efflorescens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ARL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ARL 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&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CRQ:[2-(3-CARBAMOYL-1-IMINO-PROPYL)-4-(4-HYDROXY-BENZYLIDENE)-5-OXO-4,5-DIHYDRO-IMIDAZOL-1-YL]-ACETIC+ACID'>CRQ</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene></td></tr>
-
{{STRUCTURE_2arl| PDB=2arl | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2arl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2arl OCA], [https://pdbe.org/2arl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2arl RCSB], [https://www.ebi.ac.uk/pdbsum/2arl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2arl ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/NFCP_MONEF NFCP_MONEF] Thought to play a role in photoprotection of the coral's resident symbiont microalgae's photosystems from photoinhibition caused by high light levels found near the surface of coral reefs.<ref>PMID:12595737</ref>
 +
== 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/ar/2arl_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=2arl ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The pocilloporin Rtms5 and an engineered variant Rtms5H146S undergo distinct color transitions (from blue to red to yellow to colorless) in a pH-dependent manner. pK(a) values of 4.1 and 3.2 were determined for the blue (absorption lambda(max), 590 nm) to yellow (absorption lambda(max), approximately 453 nm) transitions of Rtms5 and Rtms5H146. The pK(a) for the blue-yellow transition of Rtms5H146S increased by 1.4 U in the presence of 0.1 M KI, whereas the pK(a) for the same transition of Rtms5 was relatively insensitive to added halides. To understand the structural basis for these observations, we have determined to 2.0 angstroms resolution the crystal structure of a yellow form of Rtms5H146S at pH 3.5 in the presence of iodide. Iodide was found occupying a pocket in the structure with a pH of 3.5, forming van der Waals contacts with the tyrosyl moiety of the chromophore. Elsewhere, it was determined that this pocket is occupied by a water molecule in the Rtms5H146S structure (pH 8.0) and by the side chain of histidine 146 in the wild-type Rtms5 structure. Collectively, our data provide an explanation for the observed linkage between color transitions for Rtms5H146S and binding to halides.
-
===The 2.0 angstroms crystal structure of a pocilloporin at pH 3.5: the structural basis for the linkage between color transition and halide binding===
+
The 2.0 angstroms crystal structure of a pocilloporin at pH 3.5: the structural basis for the linkage between color transition and halide binding.,Wilmann PG, Battad J, Beddoe T, Olsen S, Smith SC, Dove S, Devenish RJ, Rossjohn J, Prescott M Photochem Photobiol. 2006 Mar-Apr;82(2):359-66. PMID:16613486<ref>PMID:16613486</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<!--
+
</div>
-
The line below this paragraph, {{ABSTRACT_PUBMED_16613486}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 2arl" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 16613486 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_16613486}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Large Structures]]
-
2ARL is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Montipora_efflorescens Montipora efflorescens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ARL OCA].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:16613486</ref><references group="xtra"/>
+
[[Category: Montipora efflorescens]]
[[Category: Montipora efflorescens]]
-
[[Category: Battad, J.]]
+
[[Category: Battad J]]
-
[[Category: Beddoe, T.]]
+
[[Category: Beddoe T]]
-
[[Category: Devenish, R J.]]
+
[[Category: Devenish RJ]]
-
[[Category: Dove, S.]]
+
[[Category: Dove S]]
-
[[Category: Olsen, S.]]
+
[[Category: Olsen S]]
-
[[Category: Prescott, M.]]
+
[[Category: Prescott M]]
-
[[Category: Rossjohn, J.]]
+
[[Category: Rossjohn J]]
-
[[Category: Smith, S C.]]
+
[[Category: Smith SC]]
-
[[Category: Wilmann, P G.]]
+
[[Category: Wilmann PG]]
-
[[Category: Chromophore]]
+
-
[[Category: Luminescence]]
+
-
[[Category: Luminescent protein]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 1 09:48:13 2009''
+

Current revision

The 2.0 angstroms crystal structure of a pocilloporin at pH 3.5: the structural basis for the linkage between color transition and halide binding

PDB ID 2arl

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/2arl"
Personal tools