3m24: Difference between revisions

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New page: '''Unreleased structure''' The entry 3m24 is ON HOLD until sometime in the future Authors: V.N.MALASHKEVICH, O. M. Subach, S.C.ALMO, V. V. Verkhusha Description: CRYSTAL STRUCTURE OF T...
 
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'''Unreleased structure'''


The entry 3m24 is ON HOLD  until sometime in the future
==Crystal structure of TagBFP fluorescent protein==
<StructureSection load='3m24' size='340' side='right'caption='[[3m24]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[3m24]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. The June 2014 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''GFP-like Proteins''  by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2014_6 10.2210/rcsb_pdb/mom_2014_6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3M24 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3M24 FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=DTT:2,3-DIHYDROXY-1,4-DITHIOBUTANE'>DTT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NRP:{4-[(4-HYDROXYPHENYL)METHYLIDENE]-2-[(1E)-3-METHYLBUTANIMIDOYL]-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC+ACID'>NRP</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=3m24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3m24 OCA], [https://pdbe.org/3m24 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3m24 RCSB], [https://www.ebi.ac.uk/pdbsum/3m24 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3m24 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/m2/3m24_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=3m24 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
We determined the 2.2 A crystal structures of the red fluorescent protein TagRFP and its derivative, the blue fluorescent protein mTagBFP. The crystallographic analysis is consistent with a model in which TagRFP has the trans coplanar anionic chromophore with the conjugated pi-electron system, similar to that of DsRed-like chromophores. Refined conformation of mTagBFP suggests the presence of an N-acylimine functionality in its chromophore and single C(alpha)-C(beta) bond in the Tyr64 side chain. Mass spectrum of mTagBFP chromophore-bearing peptide indicates a loss of 20 Da upon maturation, whereas tandem mass spectrometry reveals that the C(alpha)-N bond in Leu63 is oxidized. These data indicate that mTagBFP has a new type of the chromophore, N-[(5-hydroxy-1H-imidazole-2-yl)methylidene]acetamide. We propose a chemical mechanism in which the DsRed-like chromophore is formed via the mTagBFP-like blue intermediate.


Authors: V.N.MALASHKEVICH, O. M. Subach, S.C.ALMO, V. V. Verkhusha
Structural characterization of acylimine-containing blue and red chromophores in mTagBFP and TagRFP fluorescent proteins.,Subach OM, Malashkevich VN, Zencheck WD, Morozova KS, Piatkevich KD, Almo SC, Verkhusha VV Chem Biol. 2010 Apr 23;17(4):333-41. PMID:20416505<ref>PMID:20416505</ref>


Description: CRYSTAL STRUCTURE OF TagBFP fluorescent protein
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 17 09:12:50 2010''
<div class="pdbe-citations 3m24" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: GFP-like Proteins]]
[[Category: Large Structures]]
[[Category: RCSB PDB Molecule of the Month]]
[[Category: Synthetic construct]]
[[Category: Almo SC]]
[[Category: Malashkevich VN]]
[[Category: Subach OM]]
[[Category: Verkhusha VV]]
Retrieved from "https://proteopedia.org/3m24"