6lof: Difference between revisions

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New page: ==Crystal structure of ZsYellow soaked by Cu2+== <StructureSection load='6lof' size='340' side='right'caption='6lof, resolution 2.60Å' scene=''> == Structural hig...
 
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<StructureSection load='6lof' size='340' side='right'caption='[[6lof]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
<StructureSection load='6lof' size='340' side='right'caption='[[6lof]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[6lof]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6LOF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6LOF FirstGlance]. <br>
<table><tr><td colspan='2'>[[6lof]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Zoanthus_sp. Zoanthus sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6LOF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6LOF FirstGlance]. <br>
</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CH7:[(4Z)-4-(4-HYDROXYBENZYLIDENE)-5-OXO-2-(3,4,5,6-TETRAHYDROPYRIDIN-2-YL)-4,5-DIHYDRO-1H-IMIDAZOL-1-YL]ACETIC+ACID'>CH7</scene>, <scene name='pdbligand=NFA:PHENYLALANINE+AMIDE'>NFA</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.6&#8491;</td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6lof FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6lof OCA], [http://pdbe.org/6lof PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6lof RCSB], [http://www.ebi.ac.uk/pdbsum/6lof PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6lof ProSAT]</span></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CH7:[(4Z)-4-(4-HYDROXYBENZYLIDENE)-5-OXO-2-(3,4,5,6-TETRAHYDROPYRIDIN-2-YL)-4,5-DIHYDRO-1H-IMIDAZOL-1-YL]ACETIC+ACID'>CH7</scene>, <scene name='pdbligand=NFA:PHENYLALANINE+AMIDE'>NFA</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=6lof FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6lof OCA], [https://pdbe.org/6lof PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6lof RCSB], [https://www.ebi.ac.uk/pdbsum/6lof PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6lof ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[http://www.uniprot.org/uniprot/GFPL2_ZOASP GFPL2_ZOASP]] Pigment protein that is yellow in color.<ref>PMID:10504696</ref> <ref>PMID:15628861</ref>
[https://www.uniprot.org/uniprot/GFPL2_ZOASP GFPL2_ZOASP] Pigment protein that is yellow in color.<ref>PMID:10504696</ref> <ref>PMID:15628861</ref>  
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Fluorescent proteins exhibit fluorescence quenching by specific transition metals, suggesting their potential as fluorescent protein-based metal biosensors. Each fluorescent protein exhibits unique spectroscopic properties and mechanisms for fluorescence quenching by metals. Therefore, the metal-induced fluorescence quenching analysis of various new fluorescent proteins would be important step towards the development of such fluorescent protein-based metal biosensors. Here, we first report the spectroscopic and structural analysis of the yellow fluorescent protein ZsYellow, following its metal-induced quenching. Spectroscopic analysis showed that ZsYellow exhibited a high degree of fluorescence quenching by Cu(2+). During Cu(2+)-induced ZsYellow quenching, fluorescence emission was recovered by adding EDTA. The crystal structure of ZsYellow soaked in Cu(2+) solution was determined at a 2.6 A resolution. The electron density map did not indicate the presence of Cu(2+) around the chromophore or the beta-barrel surface, which resulted in fluorescence quenching without Cu(2+) binding to specific site in ZsYellow. Based on these results, we propose the fluorescence quenching to occur in a distance-dependent manner between the metal and the fluorescent protein, when these components get to a closer vicinity at higher metal concentrations. Our results provide useful insights for future development of fluorescent protein-based metal biosensors.
 
Spectroscopic and Structural Analysis of Cu(2+)-Induced Fluorescence Quenching of ZsYellow.,Kim IJ, Xu Y, Nam KH Biosensors (Basel). 2020 Mar 23;10(3). pii: bios10030029. doi:, 10.3390/bios10030029. PMID:32210006<ref>PMID:32210006</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 6lof" style="background-color:#fffaf0;"></div>
== References ==
== References ==
<references/>
<references/>
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</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Nam, K H]]
[[Category: Zoanthus sp]]
[[Category: Fluorescent protein]]
[[Category: Nam KH]]
[[Category: Yellow]]
[[Category: Zsyellow]]
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