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| | ==Crystal structure of the photosensory core module (PCM) of a bathy phytochrome from Agrobacterium fabrum in the Pfr state.== | | ==Crystal structure of the photosensory core module (PCM) of a bathy phytochrome from Agrobacterium fabrum in the Pfr state.== |
| - | <StructureSection load='6g1y' size='340' side='right' caption='[[6g1y]], [[Resolution|resolution]] 2.50Å' scene=''> | + | <StructureSection load='6g1y' size='340' side='right'caption='[[6g1y]], [[Resolution|resolution]] 2.50Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6g1y]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrfc Agrfc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6G1Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6G1Y FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6g1y]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_fabrum_str._C58 Agrobacterium fabrum str. C58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6G1Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6G1Y FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EL5:Biliverdin'>EL5</scene></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EL5:3-[(2Z)-2-({3-(2-carboxyethyl)-5-[(E)-(4-ethenyl-3-methyl-5-oxo-1,5-dihydro-2H-pyrrol-2-ylidene)methyl]-4-methyl-1H-pyrrol-2-yl}methylidene)-5-{(Z)-[(3E,4S)-3-ethylidene-4-methyl-5-oxopyrrolidin-2-ylidene]methyl}-4-methyl-2H-pyrrol-3-yl]propanoic+acid'>EL5</scene>, <scene name='pdbligand=MLZ:N-METHYL-LYSINE'>MLZ</scene></td></tr> |
| - | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MLZ:N-METHYL-LYSINE'>MLZ</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=6g1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6g1y OCA], [https://pdbe.org/6g1y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6g1y RCSB], [https://www.ebi.ac.uk/pdbsum/6g1y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6g1y ProSAT]</span></td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[6g1z|6g1z]], [[6g20|6g20]]</td></tr>
| + | |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Atu2165 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=176299 AGRFC])</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=6g1y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6g1y OCA], [http://pdbe.org/6g1y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6g1y RCSB], [http://www.ebi.ac.uk/pdbsum/6g1y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6g1y ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/A9CI81_AGRFC A9CI81_AGRFC] |
| | <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: Agrfc]] | + | [[Category: Agrobacterium fabrum str. C58]] |
| - | [[Category: Qureshi, B M]] | + | [[Category: Large Structures]] |
| - | [[Category: Scheerer, P]] | + | [[Category: Qureshi BM]] |
| - | [[Category: Schmidt, A]] | + | [[Category: Scheerer P]] |
| - | [[Category: Bacteriophytochrome]] | + | [[Category: Schmidt A]] |
| - | [[Category: Bathy phytochrome]]
| + | |
| - | [[Category: Bilin chromophore]]
| + | |
| - | [[Category: Light adaptation]]
| + | |
| - | [[Category: Methylation]]
| + | |
| - | [[Category: Pfr state]]
| + | |
| - | [[Category: Photoisomerization]]
| + | |
| - | [[Category: Photosensory core module]]
| + | |
| - | [[Category: Phytochrome]]
| + | |
| - | [[Category: Signal transduction]]
| + | |
| - | [[Category: Signaling protein]]
| + | |
| Structural highlights
Function
A9CI81_AGRFC
Publication Abstract from PubMed
Phytochromes are modular photoreceptors of plants, bacteria and fungi that use light as a source of information to regulate fundamental physiological processes. Interconversion between the active and inactive states is accomplished by a photoinduced reaction sequence which couples the sensor with the output module. However, the underlying molecular mechanism is yet not fully understood due to the lack of structural data of functionally relevant intermediate states. Here we report the crystal structure of a Meta-F intermediate state of an Agp2 variant from Agrobacterium fabrum. This intermediate, the identity of which was verified by resonance Raman spectroscopy, was formed by irradiation of the parent Pfr state and displays significant reorientations of almost all amino acids surrounding the chromophore. Structural comparisons allow identifying structural motifs that might serve as conformational switch for initiating the functional secondary structure change that is linked to the (de-)activation of these photoreceptors.
Structural snapshot of a bacterial phytochrome in its functional intermediate state.,Schmidt A, Sauthof L, Szczepek M, Lopez MF, Escobar FV, Qureshi BM, Michael N, Buhrke D, Stevens T, Kwiatkowski D, von Stetten D, Mroginski MA, Krauss N, Lamparter T, Hildebrandt P, Scheerer P Nat Commun. 2018 Nov 21;9(1):4912. doi: 10.1038/s41467-018-07392-7. PMID:30464203[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Schmidt A, Sauthof L, Szczepek M, Lopez MF, Escobar FV, Qureshi BM, Michael N, Buhrke D, Stevens T, Kwiatkowski D, von Stetten D, Mroginski MA, Krauss N, Lamparter T, Hildebrandt P, Scheerer P. Structural snapshot of a bacterial phytochrome in its functional intermediate state. Nat Commun. 2018 Nov 21;9(1):4912. doi: 10.1038/s41467-018-07392-7. PMID:30464203 doi:http://dx.doi.org/10.1038/s41467-018-07392-7
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