3gb3

From Proteopedia

(Difference between revisions)

Current revision

X-ray structure of genetically encoded photosensitizer KillerRed in native form

Structural highlights

3gb3 is a 2 chain structure with sequence from Anthomedusae sp. DC-2005. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.75Å
Ligands:	,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q2TCH5_9CNID

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

KillerRed is the only known fluorescent protein that demonstrates notable phototoxicity, exceeding that of the other green and red fluorescent proteins by at least 1,000-fold. KillerRed could serve as an instrument to inactivate target proteins or to kill cell populations in photodynamic therapy. However, the nature of KillerRed phototoxicity has remained unclear, impeding the development of more phototoxic variants. Here we present the results of a high resolution crystallographic study of KillerRed in the active fluorescent and in the photobleached non-fluorescent states. A unique and striking feature of the structure is a water-filled channel reaching the chromophore area from the end cap of the beta-barrel that is probably one of the key structural features responsible for phototoxicity. A study of the structure-function relationship of KillerRed, supported by structure-based, site-directed mutagenesis, has also revealed the key residues most likely responsible for the phototoxic effect. In particular, Glu(68) and Ser(119), located adjacent to the chromophore, have been assigned as the primary trigger of the reaction chain.

Structural basis for phototoxicity of the genetically encoded photosensitizer KillerRed.,Pletnev S, Gurskaya NG, Pletneva NV, Lukyanov KA, Chudakov DM, Martynov VI, Popov VO, Kovalchuk MV, Wlodawer A, Dauter Z, Pletnev V J Biol Chem. 2009 Nov 13;284(46):32028-39. Epub 2009 Sep 8. PMID:19737938^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Pletnev S, Gurskaya NG, Pletneva NV, Lukyanov KA, Chudakov DM, Martynov VI, Popov VO, Kovalchuk MV, Wlodawer A, Dauter Z, Pletnev V. Structural basis for phototoxicity of the genetically encoded photosensitizer KillerRed. J Biol Chem. 2009 Nov 13;284(46):32028-39. Epub 2009 Sep 8. PMID:19737938 doi:10.1074/jbc.M109.054973

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3gb3"

Categories: Anthomedusae sp. DC-2005 | Large Structures | Pletnev S | Pletnev VZ | Pletneva NV

@@ Line 3: / Line 3: @@
 <StructureSection load='3gb3' size='340' side='right'caption='[[3gb3]], [[Resolution|resolution]] 1.75&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3gb3]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Anthomedusae_sp._dc-2005 Anthomedusae sp. dc-2005]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GB3 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3GB3 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3gb3]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Anthomedusae_sp._DC-2005 Anthomedusae sp. DC-2005]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GB3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GB3 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.75&#8491;</td></tr>
-<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><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></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=SO4:SULFATE+ION'>SO4</scene></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=3gb3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gb3 OCA], [http://pdbe.org/3gb3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3gb3 RCSB], [http://www.ebi.ac.uk/pdbsum/3gb3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3gb3 ProSAT]</span></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=3gb3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gb3 OCA], [https://pdbe.org/3gb3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gb3 RCSB], [https://www.ebi.ac.uk/pdbsum/3gb3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gb3 ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q2TCH5_9CNID Q2TCH5_9CNID]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 13: / Line 15: @@
   <jmolCheckbox>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gb/3gb3_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
@@ Line 31: / Line 33: @@
 __TOC__
 </StructureSection>
-[[Category: Anthomedusae sp. dc-2005]]
+[[Category: Anthomedusae sp. DC-2005]]
 [[Category: Large Structures]]
-[[Category: Pletnev, S]]
+[[Category: Pletnev S]]
-[[Category: Pletnev, V Z]]
+[[Category: Pletnev VZ]]
-[[Category: Pletneva, N V]]
+[[Category: Pletneva NV]]
-[[Category: Fluorescent protein]]
-[[Category: Genetically encoded photosensitizer]]
-[[Category: Killerred]]
-[[Category: Phototoxicity]]

3gb3

From Proteopedia

Current revision

X-ray structure of genetically encoded photosensitizer KillerRed in native form

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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