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| | ==COMPLEXES OF DODECIN WITH FLAVIN AND FLAVIN-LIKE LIGANDS== | | ==COMPLEXES OF DODECIN WITH FLAVIN AND FLAVIN-LIKE LIGANDS== |
| - | <StructureSection load='2vkf' size='340' side='right' caption='[[2vkf]], [[Resolution|resolution]] 1.70Å' scene=''> | + | <StructureSection load='2vkf' size='340' side='right'caption='[[2vkf]], [[Resolution|resolution]] 1.70Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[2vkf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Hals3 Hals3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VKF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VKF FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[2vkf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Halobacterium_salinarum_R1 Halobacterium salinarum R1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VKF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VKF FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CF2:2-DEOXY-5-O-{[2-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDROBENZO[G]PTERIDIN-10(2H)-YL)ETHYL]CARBAMOYL}GUANOSINE'>CF2</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <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]] 1.7Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2ccb|2ccb]], [[2ccc|2ccc]], [[2cif|2cif]], [[1mog|1mog]], [[2cc6|2cc6]], [[2cc7|2cc7]], [[2cc8|2cc8]], [[2cc9|2cc9]], [[2cie|2cie]], [[2cjc|2cjc]], [[2vkg|2vkg]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CF2:2-DEOXY-5-O-{[2-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDROBENZO[G]PTERIDIN-10(2H)-YL)ETHYL]CARBAMOYL}GUANOSINE'>CF2</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=2vkf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vkf OCA], [http://pdbe.org/2vkf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vkf RCSB], [http://www.ebi.ac.uk/pdbsum/2vkf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vkf 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=2vkf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vkf OCA], [https://pdbe.org/2vkf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vkf RCSB], [https://www.ebi.ac.uk/pdbsum/2vkf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vkf ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Q9HPW4_HALSA Q9HPW4_HALSA] |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Hals3]] | + | [[Category: Halobacterium salinarum R1]] |
| - | [[Category: Grininger, M]] | + | [[Category: Large Structures]] |
| - | [[Category: Noell, G]] | + | [[Category: Grininger M]] |
| - | [[Category: Oesterhelt, D]] | + | [[Category: Noell G]] |
| - | [[Category: Sinner, E]] | + | [[Category: Oesterhelt D]] |
| - | [[Category: Trawoeger, S]] | + | [[Category: Sinner E]] |
| - | [[Category: Biotechnological application of dodecin binding property]]
| + | [[Category: Trawoeger S]] |
| - | [[Category: Electron transport]]
| + | |
| - | [[Category: Flavin-dna ligand hybrid]]
| + | |
| Structural highlights
2vkf is a 1 chain structure with sequence from Halobacterium salinarum R1. 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
Q9HPW4_HALSA
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
Dodecin from Halobacterium salinarum is a dodecameric, hollow-spherical protein, which unspecifically adopts flavin molecules. Reduction of flavin dodecin holocomplexes induces dissociation into apododecin and free flavin. Unspecific binding and dissociation upon reduction were used as key properties to construct an electrochemically switchable surface, which was able to bind and release dodecin apoprotein depending on the applied potential. A flavin modified electrode surface (electrode-DNA-flavin) was generated by direct adsorption of double stranded DNA (ds-DNA) equipped with flavin and disulfide modifications at opposite ends. While the disulfide functionality enabled anchoring the ds-DNA at the gold surface, the flavin exposed at the surface served as the redox-active dodecin docking site. The structures of protein and flavin-DNA hybrid ligands were optimized and characterized by x-ray structural analysis of the holocomplexes. By surface plasmon resonance (SPR) spectroscopy, the adsorption of flavin modified DNA as well as the binding and the electrochemically induced release of dodecin apoprotein could be shown. When the surface immobilization protocol was changed from direct immobilization of the modified ds-DNA to a protocol, which included the hybridization of flavin and thiol modified DNA at the surface, the resulting monolayer was electrochemically inactive. A possible explanation for the strong influence of the surface immobilization protocol on addressing dodecin by the applied potential is that electron transfer is rather mediated by defects in the monolayer than modified ds-DNA.
Electrochemical switching of the flavoprotein dodecin at gold surfaces modified by flavin-DNA hybrid linkers.,Grininger M, Noll G, Trawoger S, Sinner EK, Oesterhelt D Biointerphases. 2008 Sep;3(3):51-8. PMID:20408700[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Grininger M, Noll G, Trawoger S, Sinner EK, Oesterhelt D. Electrochemical switching of the flavoprotein dodecin at gold surfaces modified by flavin-DNA hybrid linkers. Biointerphases. 2008 Sep;3(3):51-8. PMID:20408700 doi:10.1116/1.2965134
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