5o8b: Difference between revisions

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<StructureSection load='5o8b' size='340' side='right'caption='[[5o8b]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
<StructureSection load='5o8b' size='340' side='right'caption='[[5o8b]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[5o8b]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aeqvi Aeqvi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5O8B OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5O8B FirstGlance]. <br>
<table><tr><td colspan='2'>[[5o8b]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aequorea_victoria Aequorea victoria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5O8B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5O8B FirstGlance]. <br>
</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=PIA:[(4Z)-2-[(1S)-1-AMINOETHYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL]ACETIC+ACID'>PIA</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]] 1.7&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5dtx|5dtx]], [[5dty|5dty]]</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PIA:[(4Z)-2-[(1S)-1-AMINOETHYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL]ACETIC+ACID'>PIA</scene></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">GFP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6100 AEQVI])</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=5o8b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5o8b OCA], [https://pdbe.org/5o8b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5o8b RCSB], [https://www.ebi.ac.uk/pdbsum/5o8b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5o8b ProSAT]</span></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=5o8b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5o8b OCA], [http://pdbe.org/5o8b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5o8b RCSB], [http://www.ebi.ac.uk/pdbsum/5o8b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5o8b ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[http://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.  
[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.
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
== Publication Abstract from PubMed ==
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Aeqvi]]
[[Category: Aequorea victoria]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Adam, V]]
[[Category: Adam V]]
[[Category: Aquila, A]]
[[Category: Aquila A]]
[[Category: Barends, T R.M]]
[[Category: Barends TRM]]
[[Category: Bourgeois, D]]
[[Category: Bourgeois D]]
[[Category: Boutet, S]]
[[Category: Boutet S]]
[[Category: Byrdin, M]]
[[Category: Byrdin M]]
[[Category: Cammarata, M]]
[[Category: Cammarata M]]
[[Category: Carbajo, S]]
[[Category: Carbajo S]]
[[Category: Colletier, J P]]
[[Category: Colletier JP]]
[[Category: Coquelle, N]]
[[Category: Coquelle N]]
[[Category: Demachy, I]]
[[Category: De la Mora E]]
[[Category: Doak, R B]]
[[Category: Demachy I]]
[[Category: Feliks, M]]
[[Category: Doak RB]]
[[Category: Field, M]]
[[Category: Feliks M]]
[[Category: Fieschi, F]]
[[Category: Field M]]
[[Category: Foucar, L]]
[[Category: Fieschi F]]
[[Category: Guillon, V]]
[[Category: Foucar L]]
[[Category: Hilpert, M]]
[[Category: Guillon V]]
[[Category: Hunter, M]]
[[Category: Hilpert M]]
[[Category: Jakobs, S]]
[[Category: Hunter M]]
[[Category: Koglin, J E]]
[[Category: Jakobs S]]
[[Category: Kovacsova, G]]
[[Category: Koglin JE]]
[[Category: Lane, T J]]
[[Category: Kovacsova G]]
[[Category: Levy, B]]
[[Category: Lane TJ]]
[[Category: Liang, M]]
[[Category: Levy B]]
[[Category: Mora, E De la]]
[[Category: Liang M]]
[[Category: Nass, K]]
[[Category: Nass K]]
[[Category: Ridard, J]]
[[Category: Ridard J]]
[[Category: Robinson, J S]]
[[Category: Robinson JS]]
[[Category: Roome, C M]]
[[Category: Roome CM]]
[[Category: Ruckebusch, C]]
[[Category: Ruckebusch C]]
[[Category: Schiro, G]]
[[Category: Schiro G]]
[[Category: Schlichting, I]]
[[Category: Schlichting I]]
[[Category: Seaberg, M]]
[[Category: Seaberg M]]
[[Category: Shoeman, R L]]
[[Category: Shoeman RL]]
[[Category: Sliwa, M]]
[[Category: Sliwa M]]
[[Category: Thepaut, M]]
[[Category: Thepaut M]]
[[Category: Weik, M]]
[[Category: Weik M]]
[[Category: Woodhouse, J]]
[[Category: Woodhouse J]]
[[Category: Fluorescent protein]]
[[Category: Photoswitching on state fluorescent state chromophore sfx serial femtosecond crystallography cxi lcls time resolved crystallography chromohore isomerisation]]

Latest revision as of 12:36, 6 December 2023

Difference-refined excited-state structure of rsEGFP2 1ps following 400nm-laser irradiation of the off-state.Difference-refined excited-state structure of rsEGFP2 1ps following 400nm-laser irradiation of the off-state.

Structural highlights

5o8b is a 1 chain structure with sequence from Aequorea victoria. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.7Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

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.

Publication Abstract from PubMed

Chromophores absorb light in photosensitive proteins and thereby initiate fundamental biological processes such as photosynthesis, vision and biofluorescence. An important goal in their understanding is the provision of detailed structural descriptions of the ultrafast photochemical events that they undergo, in particular of the excited states that connect chemistry to biological function. Here we report on the structures of two excited states in the reversibly photoswitchable fluorescent protein rsEGFP2. We populated the states through femtosecond illumination of rsEGFP2 in its non-fluorescent off state and observed their build-up (within less than one picosecond) and decay (on the several picosecond timescale). Using an X-ray free-electron laser, we performed picosecond time-resolved crystallography and show that the hydroxybenzylidene imidazolinone chromophore in one of the excited states assumes a near-canonical twisted configuration halfway between the trans and cis isomers. This is in line with excited-state quantum mechanics/molecular mechanics and classical molecular dynamics simulations. Our new understanding of the structure around the twisted chromophore enabled the design of a mutant that displays a twofold increase in its off-to-on photoswitching quantum yield.

Chromophore twisting in the excited state of a photoswitchable fluorescent protein captured by time-resolved serial femtosecond crystallography.,Coquelle N, Sliwa M, Woodhouse J, Schiro G, Adam V, Aquila A, Barends TRM, Boutet S, Byrdin M, Carbajo S, De la Mora E, Doak RB, Feliks M, Fieschi F, Foucar L, Guillon V, Hilpert M, Hunter MS, Jakobs S, Koglin JE, Kovacsova G, Lane TJ, Levy B, Liang M, Nass K, Ridard J, Robinson JS, Roome CM, Ruckebusch C, Seaberg M, Thepaut M, Cammarata M, Demachy I, Field M, Shoeman RL, Bourgeois D, Colletier JP, Schlichting I, Weik M Nat Chem. 2018 Jan;10(1):31-37. doi: 10.1038/nchem.2853. Epub 2017 Sep 11. PMID:29256511[1]

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

See Also

References

  1. Coquelle N, Sliwa M, Woodhouse J, Schiro G, Adam V, Aquila A, Barends TRM, Boutet S, Byrdin M, Carbajo S, De la Mora E, Doak RB, Feliks M, Fieschi F, Foucar L, Guillon V, Hilpert M, Hunter MS, Jakobs S, Koglin JE, Kovacsova G, Lane TJ, Levy B, Liang M, Nass K, Ridard J, Robinson JS, Roome CM, Ruckebusch C, Seaberg M, Thepaut M, Cammarata M, Demachy I, Field M, Shoeman RL, Bourgeois D, Colletier JP, Schlichting I, Weik M. Chromophore twisting in the excited state of a photoswitchable fluorescent protein captured by time-resolved serial femtosecond crystallography. Nat Chem. 2018 Jan;10(1):31-37. doi: 10.1038/nchem.2853. Epub 2017 Sep 11. PMID:29256511 doi:http://dx.doi.org/10.1038/nchem.2853

5o8b, resolution 1.70Å

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