3lsa

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:08, 6 November 2024) (edit) (undo)
 
(7 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:3lsa.png|left|200px]]
 
-
<!--
+
==Padron0.9-OFF (non-fluorescent state)==
-
The line below this paragraph, containing "STRUCTURE_3lsa", creates the "Structure Box" on the page.
+
<StructureSection load='3lsa' size='340' side='right'caption='[[3lsa]], [[Resolution|resolution]] 1.79&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'>[[3lsa]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pectiniidae Pectiniidae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LSA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3LSA 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]] 1.79&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=GYC:[(4Z)-2-[(1R)-1-AMINO-2-MERCAPTOETHYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL]ACETIC+ACID'>GYC</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene></td></tr>
-
{{STRUCTURE_3lsa| PDB=3lsa | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3lsa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lsa OCA], [https://pdbe.org/3lsa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3lsa RCSB], [https://www.ebi.ac.uk/pdbsum/3lsa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3lsa ProSAT]</span></td></tr>
 +
</table>
 +
== 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/ls/3lsa_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=3lsa ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Reversibly switchable fluorescent proteins can be repeatedly photoswitched between a fluorescent and a nonfluorescent state by irradiation with the light of two different wavelengths. The molecular basis of the switching process remains a controversial topic. Padron0.9 is a reversibly switchable fluorescent protein with "positive" switching characteristics, exhibiting excellent spectroscopic properties. Its chromophore is formed by the amino acids Cys-Tyr-Gly. We obtained high resolution x-ray structures of Padron0.9 in both the fluorescent and the nonfluorescent states and used the structural information for molecular dynamics simulations. We found that in Padron0.9 the chromophore undergoes a cis-trans isomerization upon photoswitching. The molecular dynamics simulations clarified the protonation states of the amino acid residues within the chromophore pocket that influence the protonation state of the chromophore. We conclude that a light driven cis-trans isomerization of the chromophore appears to be the fundamental switching mechanism in all photochromic fluorescent proteins known to date. Distinct absorption cross-sections for the switching wavelengths in the fluorescent and the nonfluorescent state are not essential for efficient photochromism in fluorescent proteins, although they may facilitate the switching process.
-
===Padron0.9-OFF (non-fluorescent state)===
+
Molecular basis of the light-driven switching of the photochromic fluorescent protein Padron.,Brakemann T, Weber G, Andresen M, Groenhof G, Stiel AC, Trowitzsch S, Eggeling C, Grubmuller H, Hell SW, Wahl MC, Jakobs S J Biol Chem. 2010 May 7;285(19):14603-9. Epub 2010 Mar 16. PMID:20236929<ref>PMID:20236929</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_20236929}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 3lsa" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 20236929 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_20236929}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Large Structures]]
-
3LSA is a 4 chains structure with sequences from [http://en.wikipedia.org/wiki/Pectiniidae Pectiniidae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LSA OCA].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:20236929</ref><references group="xtra"/>
+
[[Category: Pectiniidae]]
[[Category: Pectiniidae]]
-
[[Category: Brakemann, T.]]
+
[[Category: Brakemann T]]
-
[[Category: Jakobs, S.]]
+
[[Category: Jakobs S]]
-
[[Category: Trowitzsch, S.]]
+
[[Category: Trowitzsch S]]
-
[[Category: Wahl, M C.]]
+
[[Category: Wahl MC]]
-
[[Category: Weber, G.]]
+
[[Category: Weber G]]
-
[[Category: Beta barrel]]
+
-
[[Category: Cis-trans isomerisation]]
+
-
[[Category: Fluorescent protein]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 31 12:48:22 2010''
+

Current revision

Padron0.9-OFF (non-fluorescent state)

PDB ID 3lsa

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/3lsa"
Personal tools