3ogo: Difference between revisions

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[[Image:3ogo.png|left|200px]]


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==Structure of the GFP:GFP-nanobody complex at 2.8 A resolution in spacegroup P21212==
The line below this paragraph, containing "STRUCTURE_3ogo", creates the "Structure Box" on the page.
<StructureSection load='3ogo' size='340' side='right'caption='[[3ogo]], [[Resolution|resolution]] 2.80&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'>[[3ogo]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Aequorea_victoria Aequorea victoria] and [https://en.wikipedia.org/wiki/Camelus_dromedarius Camelus dromedarius]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3OGO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3OGO 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]] 2.8&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CRO:{2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>CRO</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene></td></tr>
{{STRUCTURE_3ogo|  PDB=3ogo  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3ogo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ogo OCA], [https://pdbe.org/3ogo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ogo RCSB], [https://www.ebi.ac.uk/pdbsum/3ogo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ogo ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/GFP_AEQVI GFP_AEQVI] Energy-transfer acceptor. Its role is to transduce the blue chemiluminescence of the protein aequorin into green fluorescent light by energy transfer. Fluoresces in vivo upon receiving energy from the Ca(2+)-activated photoprotein aequorin.
== 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/og/3ogo_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=3ogo ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The green fluorescent protein (GFP)-nanobody is a single-chain VHH antibody domain developed with specific binding activity against GFP and is emerging as a powerful tool for isolation and cellular engineering of fluorescent protein fusions in many different fields of biological research. Using X-ray crystallography and isothermal titration calorimetry, we determine the molecular details of GFP:GFP-nanobody complex formation and explain the basis of high affinity and at the same time high specificity of protein binding. Although the GFP-nanobody can also bind YFP, it cannot bind the closely related CFP or other fluorescent proteins from the mFruit series. CFP differs from GFP only within the central chromophore and at one surface amino acid position, which lies in the binding interface. Using this information, we have engineered a CFP variant (I146N) that is also able to bind the GFP-nanobody with high affinity, thus extending the toolbox of genetically encoded fluorescent probes that can be isolated using the GFP-nanobody.


===Structure of the GFP:GFP-nanobody complex at 2.8 A resolution in spacegroup P21212===
Structural and thermodynamic analysis of the GFP:GFP-nanobody complex.,Kubala MH, Kovtun O, Alexandrov K, Collins BM Protein Sci. 2010 Dec;19(12):2389-401. doi: 10.1002/pro.519. PMID:20945358<ref>PMID:20945358</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3ogo" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_20945358}}, adds the Publication Abstract to the page
*[[Green Fluorescent Protein 3D structures|Green Fluorescent Protein 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 20945358 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_20945358}}
__TOC__
 
</StructureSection>
==About this Structure==
[[3ogo]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Aequorea_victoria Aequorea victoria] and [http://en.wikipedia.org/wiki/Camelus_dromedarius Camelus dromedarius]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3miq 3miq]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3OGO OCA].
 
==Reference==
<ref group="xtra">PMID:20945358</ref><references group="xtra"/>
[[Category: Aequorea victoria]]
[[Category: Aequorea victoria]]
[[Category: Camelus dromedarius]]
[[Category: Camelus dromedarius]]
[[Category: Alexandrov, K.]]
[[Category: Large Structures]]
[[Category: Collins, B M.]]
[[Category: Alexandrov K]]
[[Category: Kovtun, O.]]
[[Category: Collins BM]]
[[Category: Kubala, M H.]]
[[Category: Kovtun O]]
[[Category: Kubala MH]]

Latest revision as of 08:13, 19 March 2026

Structure of the GFP:GFP-nanobody complex at 2.8 A resolution in spacegroup P21212

3ogo, resolution 2.80Å

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