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| | <StructureSection load='6saw' size='340' side='right'caption='[[6saw]], [[Resolution|resolution]] 3.00Å' scene=''> | | <StructureSection load='6saw' size='340' side='right'caption='[[6saw]], [[Resolution|resolution]] 3.00Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6saw]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Idiomarina_sp._a28l Idiomarina sp. a28l]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SAW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6SAW FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6saw]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Idiomarina_sp._A28L Idiomarina sp. A28L]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SAW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6SAW FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=LBV:3-[2-[(Z)-[3-(2-CARBOXYETHYL)-5-[(Z)-(4-ETHENYL-3-METHYL-5-OXIDANYLIDENE-PYRROL-2-YLIDENE)METHYL]-4-METHYL-PYRROL-1-IUM-2-YLIDENE]METHYL]-5-[(Z)-[(3E)-3-ETHYLIDENE-4-METHYL-5-OXIDANYLIDENE-PYRROLIDIN-2-YLIDENE]METHYL]-4-METHYL-1H-PYRROL-3-YL]PROPANOIC+ACID'>LBV</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]] 3Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5llw|5llw]], [[5lly|5lly]], [[6et7|6et7]]</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=LBV:3-[2-[(Z)-[3-(2-CARBOXYETHYL)-5-[(Z)-(4-ETHENYL-3-METHYL-5-OXIDANYLIDENE-PYRROL-2-YLIDENE)METHYL]-4-METHYL-PYRROL-1-IUM-2-YLIDENE]METHYL]-5-[(Z)-[(3E)-3-ETHYLIDENE-4-METHYL-5-OXIDANYLIDENE-PYRROLIDIN-2-YLIDENE]METHYL]-4-METHYL-1H-PYRROL-3-YL]PROPANOIC+ACID'>LBV</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">A28LD_0430 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1036674 Idiomarina sp. A28L])</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=6saw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6saw OCA], [https://pdbe.org/6saw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6saw RCSB], [https://www.ebi.ac.uk/pdbsum/6saw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6saw 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=6saw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6saw OCA], [http://pdbe.org/6saw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6saw RCSB], [http://www.ebi.ac.uk/pdbsum/6saw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6saw ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/F7RW09_9GAMM F7RW09_9GAMM] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
| Line 18: |
Line 19: |
| | </div> | | </div> |
| | <div class="pdbe-citations 6saw" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 6saw" style="background-color:#fffaf0;"></div> |
| | + | |
| | + | ==See Also== |
| | + | *[[Diguanylate cyclase|Diguanylate cyclase]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Idiomarina sp. a28l]] | + | [[Category: Idiomarina sp. A28L]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Gourinchas, G]] | + | [[Category: Gourinchas G]] |
| - | [[Category: Winkler, A]] | + | [[Category: Winkler A]] |
| - | [[Category: Activated conformation]]
| + | |
| - | [[Category: Bacteriophytochrome]]
| + | |
| - | [[Category: Biliverdin]]
| + | |
| - | [[Category: Lyase]]
| + | |
| Structural highlights
Function
F7RW09_9GAMM
Publication Abstract from PubMed
Sensing of red and far-red light by bacteriophytochromes involves intricate interactions between their bilin chromophore and the protein environment. The light-triggered rearrangements of the cofactor configuration and eventually the protein conformation enable bacteriophytochromes to interact with various protein effector domains for biological modulation of diverse physiological functions. Excitation of the holoproteins by red or far-red light promotes the photoconversion to their far red light-absorbing Pfr state or the red light-absorbing Pr state, respectively. Because prototypical bacteriophytochromes have a parallel dimer architecture, it is generally assumed that symmetric activation with two Pfr state protomers constitutes the signaling-active species. However, the bacteriophytochrome from Idiomarina species A28L (IsPadC) has recently been reported to enable long-range signal transduction also in asymmetric dimers containing only one Pfr protomer. By combining crystallography, hydrogen-deuterium exchange coupled to MS and vibrational spectroscopy, we show here that Pfr of IsPadC is in equilibrium with an intermediate "Pfr-like" state that combines features of Pfr and Meta-R states observed in other bacteriophytochromes. We also show that structural rearrangements in the N-terminal segment (NTS) can stabilize this Pfr-like state and that the PHY-tongue conformation of IsPadC is partially uncoupled from the initial changes in the NTS. This uncoupling enables structural asymmetry of the overall homodimeric assembly and allows signal transduction to the covalently linked physiological diguanylate cyclase output module in which asymmetry might play a role in the enzyme-catalyzed reaction. The functional differences to other phytochrome systems identified here highlight opportunities for using additional red-light sensors in artificial sensor-effector systems.
Distinct chromophore-protein environments enable asymmetric activation of a bacteriophytochrome activated diguanylate cyclase.,Buhrke D, Gourinchas G, Muller M, Michael N, Hildebrandt P, Winkler A J Biol Chem. 2019 Dec 4. pii: RA119.011915. doi: 10.1074/jbc.RA119.011915. PMID:31801828[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Buhrke D, Gourinchas G, Muller M, Michael N, Hildebrandt P, Winkler A. Distinct chromophore-protein environments enable asymmetric activation of a bacteriophytochrome activated diguanylate cyclase. J Biol Chem. 2019 Dec 4. pii: RA119.011915. doi: 10.1074/jbc.RA119.011915. PMID:31801828 doi:http://dx.doi.org/10.1074/jbc.RA119.011915
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