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| | <StructureSection load='3kgg' size='340' side='right'caption='[[3kgg]], [[Resolution|resolution]] 2.10Å' scene=''> | | <StructureSection load='3kgg' size='340' side='right'caption='[[3kgg]], [[Resolution|resolution]] 2.10Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3kgg]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Common_european_squid Common european squid]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KGG OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3KGG FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3kgg]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Loligo_vulgaris Loligo vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KGG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KGG FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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]] 2.1Å</td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Diisopropyl-fluorophosphatase Diisopropyl-fluorophosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.8.2 3.1.8.2] </span></td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=3kgg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kgg OCA], [http://pdbe.org/3kgg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3kgg RCSB], [http://www.ebi.ac.uk/pdbsum/3kgg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3kgg 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=3kgg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kgg OCA], [https://pdbe.org/3kgg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3kgg RCSB], [https://www.ebi.ac.uk/pdbsum/3kgg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3kgg ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/DFPA_LOLVU DFPA_LOLVU]] Biological function and substrate unknown. However, it is capable of acting on phosphorus anhydride bonds (such as phosphorus-halide and phosphorus-cyanide) in organophosphorus compounds (including nerve gases).<ref>PMID:15966726</ref> | + | [https://www.uniprot.org/uniprot/DFPA_LOLVU DFPA_LOLVU] Biological function and substrate unknown. However, it is capable of acting on phosphorus anhydride bonds (such as phosphorus-halide and phosphorus-cyanide) in organophosphorus compounds (including nerve gases).<ref>PMID:15966726</ref> |
| | == 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: Common european squid]] | |
| - | [[Category: Diisopropyl-fluorophosphatase]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Blum, M M]] | + | [[Category: Loligo vulgaris]] |
| - | [[Category: Chen, J C.H]] | + | [[Category: Blum M-M]] |
| - | [[Category: Hanson, B L]] | + | [[Category: Chen JC-H]] |
| - | [[Category: John, H]] | + | [[Category: Hanson BL]] |
| - | [[Category: Langan, P]] | + | [[Category: John H]] |
| - | [[Category: Schoenborn, B P]] | + | [[Category: Langan P]] |
| - | [[Category: Tomanicek, S J]] | + | [[Category: Schoenborn BP]] |
| - | [[Category: Terjans, H R]] | + | [[Category: Tomanicek SJ]] |
| - | [[Category: Beta propeller]]
| + | [[Category: Terjans HR]] |
| - | [[Category: Calcium]]
| + | |
| - | [[Category: Hydrolase]]
| + | |
| - | [[Category: Metal-binding]]
| + | |
| - | [[Category: Phosphotriesterase]]
| + | |
| Structural highlights
Function
DFPA_LOLVU Biological function and substrate unknown. However, it is capable of acting on phosphorus anhydride bonds (such as phosphorus-halide and phosphorus-cyanide) in organophosphorus compounds (including nerve gases).[1]
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
The signal-to-noise ratio is one of the limiting factors in neutron macromolecular crystallography. Protein perdeuteration, which replaces all H atoms with deuterium, is a method of improving the signal-to-noise ratio of neutron crystallography experiments by reducing the incoherent scattering of the hydrogen isotope. Detailed analyses of perdeuterated and hydrogenated structures are necessary in order to evaluate the utility of perdeuterated crystals for neutron diffraction studies. The room-temperature X-ray structure of perdeuterated diisopropyl fluorophosphatase (DFPase) is reported at 2.1 A resolution. Comparison with an independently refined hydrogenated room-temperature structure of DFPase revealed no major systematic differences, although the crystals of perdeuterated DFPase did not diffract neutrons. The lack of diffraction is examined with respect to data-collection and crystallographic parameters. The diffraction characteristics of successful neutron structure determinations are presented as a guideline for future neutron diffraction studies of macromolecules. X-ray diffraction to beyond 2.0 A resolution appears to be a strong predictor of successful neutron structures.
X-ray structure of perdeuterated diisopropyl fluorophosphatase (DFPase): perdeuteration of proteins for neutron diffraction.,Blum MM, Tomanicek SJ, John H, Hanson BL, Ruterjans H, Schoenborn BP, Langan P, Chen JC Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Apr 1;66(Pt, 4):379-85. Epub 2010 Mar 26. PMID:20383004[2]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Katsemi V, Lucke C, Koepke J, Lohr F, Maurer S, Fritzsch G, Ruterjans H. Mutational and structural studies of the diisopropylfluorophosphatase from Loligo vulgaris shed new light on the catalytic mechanism of the enzyme. Biochemistry. 2005 Jun 28;44(25):9022-33. PMID:15966726 doi:10.1021/bi0500675
- ↑ Blum MM, Tomanicek SJ, John H, Hanson BL, Ruterjans H, Schoenborn BP, Langan P, Chen JC. X-ray structure of perdeuterated diisopropyl fluorophosphatase (DFPase): perdeuteration of proteins for neutron diffraction. Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Apr 1;66(Pt, 4):379-85. Epub 2010 Mar 26. PMID:20383004 doi:10.1107/S1744309110004318
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