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| | <StructureSection load='6mhi' size='340' side='right'caption='[[6mhi]], [[Resolution|resolution]] 1.35Å' scene=''> | | <StructureSection load='6mhi' size='340' side='right'caption='[[6mhi]], [[Resolution|resolution]] 1.35Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6mhi]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dsm_244 Dsm 244]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MHI FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6mhi]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Halorhodospira_halophila Halorhodospira halophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MHI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6MHI FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=YYZ:(2E)-3-(3,5-dichloro-4-hydroxyphenyl)prop-2-enoic+acid'>YYZ</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]] 1.35Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pyp ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 DSM 244])</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=YYZ:(2E)-3-(3,5-dichloro-4-hydroxyphenyl)prop-2-enoic+acid'>YYZ</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=6mhi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mhi OCA], [http://pdbe.org/6mhi PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mhi RCSB], [http://www.ebi.ac.uk/pdbsum/6mhi PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mhi 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=6mhi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mhi OCA], [https://pdbe.org/6mhi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6mhi RCSB], [https://www.ebi.ac.uk/pdbsum/6mhi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6mhi ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/PYP_HALHA PYP_HALHA]] Photoactive blue light protein. Probably functions as a photoreceptor for a negative phototaxis response. | + | [https://www.uniprot.org/uniprot/PYP_HALHA PYP_HALHA] Photoactive blue light protein. Probably functions as a photoreceptor for a negative phototaxis response. |
| | <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: Dsm 244]] | + | [[Category: Halorhodospira halophila]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Both, J]] | + | [[Category: Both J]] |
| - | [[Category: Boxer, S G]] | + | [[Category: Boxer SG]] |
| - | [[Category: Martinez, T]] | + | [[Category: Martinez T]] |
| - | [[Category: Parrish, R M]] | + | [[Category: Parrish RM]] |
| - | [[Category: Thomson, B D]] | + | [[Category: Thomson BD]] |
| - | [[Category: Wu, Y]] | + | [[Category: Wu Y]] |
| - | [[Category: Active site]]
| + | |
| - | [[Category: Chlorinated chromophore]]
| + | |
| - | [[Category: Hydrogen bonding network]]
| + | |
| - | [[Category: Low-barrier hydrogen bond]]
| + | |
| - | [[Category: Signaling protein]]
| + | |
| Structural highlights
Function
PYP_HALHA Photoactive blue light protein. Probably functions as a photoreceptor for a negative phototaxis response.
Publication Abstract from PubMed
Photoactive yellow protein (PYP) is a small photoreceptor protein that has two unusually short hydrogen bonds between the deprotonated p-coumaric acid chromophore and two amino acids, a tyrosine and a glutamic acid. This has led to considerable debate as to whether the glutamic acid-chromophore hydrogen bond is a low barrier hydrogen bond, with conflicting results in the literature. We have modified the p Ka of the tyrosine by amber suppression and of the chromophore by chemical substitution. X-ray crystal structures of these modified proteins are nearly identical to the wild-type protein, so the heavy atom distance between proton donor and acceptor is maintained, even though these modifications change the relative proton affinity between donor and acceptor. Despite a considerable change in relative proton affinity, the NMR chemical shifts of the hydrogen-bonded protons are only moderately affected. QM/MM calculations were used to explore the protons' potential energy surface and connect the calculated proton position with empirically measured proton chemical shifts. The results are inconsistent with a low barrier hydrogen bond but in all cases are consistent with a localized proton, suggesting an ionic hydrogen bond rather than a low barrier hydrogen bond.
Perturbation of Short Hydrogen Bonds in Photoactive Yellow Protein via Noncanonical Amino Acid Incorporation.,Thomson B, Both J, Wu Y, Parrish RM, Martinez TJ, Boxer SG J Phys Chem B. 2019 May 31. doi: 10.1021/acs.jpcb.9b01571. PMID:31117606[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Thomson B, Both J, Wu Y, Parrish RM, Martinez TJ, Boxer SG. Perturbation of Short Hydrogen Bonds in Photoactive Yellow Protein via Noncanonical Amino Acid Incorporation. J Phys Chem B. 2019 May 31. doi: 10.1021/acs.jpcb.9b01571. PMID:31117606 doi:http://dx.doi.org/10.1021/acs.jpcb.9b01571
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