|
|
| (One intermediate revision not shown.) |
| Line 1: |
Line 1: |
| | | | |
| | ==Crystal structure of Bacillus sp. TB-90 urate oxidase without dehydration== | | ==Crystal structure of Bacillus sp. TB-90 urate oxidase without dehydration== |
| - | <StructureSection load='5yj2' size='340' side='right' caption='[[5yj2]], [[Resolution|resolution]] 1.71Å' scene=''> | + | <StructureSection load='5yj2' size='340' side='right'caption='[[5yj2]], [[Resolution|resolution]] 1.71Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5yj2]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YJ2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YJ2 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5yj2]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_sp._TB-90 Bacillus sp. TB-90]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YJ2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YJ2 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AZA:8-AZAXANTHINE'>AZA</scene>, <scene name='pdbligand=MXE:2-METHOXYETHANOL'>MXE</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</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]] 1.71Å</td></tr> |
| - | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</scene></td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AZA:8-AZAXANTHINE'>AZA</scene>, <scene name='pdbligand=MXE:2-METHOXYETHANOL'>MXE</scene>, <scene name='pdbligand=OCS:CYSTEINESULFONIC+ACID'>OCS</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1j2g|1j2g]], [[3wlv|3wlv]], [[5ayj|5ayj]], [[4xfp|4xfp]], [[5y2p|5y2p]], [[5y52|5y52]]</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=5yj2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yj2 OCA], [https://pdbe.org/5yj2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yj2 RCSB], [https://www.ebi.ac.uk/pdbsum/5yj2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yj2 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=5yj2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yj2 OCA], [http://pdbe.org/5yj2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yj2 RCSB], [http://www.ebi.ac.uk/pdbsum/5yj2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yj2 ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/PUCL_BACSB PUCL_BACSB]] Catalyzes two steps in the degradation of uric acid, i.e. the oxidation of uric acid to 5-hydroxyisourate (HIU) and the stereoselective decarboxylation of 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU) to (S)-allantoin (By similarity). | + | [https://www.uniprot.org/uniprot/PUCL_BACSB PUCL_BACSB] Catalyzes two steps in the degradation of uric acid, i.e. the oxidation of uric acid to 5-hydroxyisourate (HIU) and the stereoselective decarboxylation of 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU) to (S)-allantoin (By similarity). |
| - | <div style="background-color:#fffaf0;">
| + | |
| - | == Publication Abstract from PubMed ==
| + | |
| - | Bacillus sp. TB-90 urate oxidase (BTUO) is one of the most thermostable homotetrameric enzymes. We previously reported [Hibi, T., et al. (2014) Biochemistry 53, 3879-3888] that specific binding of a sulfate anion induced thermostabilization of the enzyme, because the bound sulfate formed a salt bridge with two Arg298 residues, which stabilized the packing between two beta-barrel dimers. To extensively characterize the sulfate-binding site, Arg298 was substituted with cysteine by site-directed mutagenesis. This substitution markedly increased the protein melting temperature by approximately 20 degrees C compared with that of the wild-type enzyme, which was canceled by reduction with dithiothreitol. Calorimetric analysis of the thermal denaturation suggested that the hyperstabilization resulted from suppression of the dissociation of the tetramer into the two homodimers. The crystal structure of R298C at 2.05 A resolution revealed distinct disulfide bond formation between the symmetrically related subunits via Cys298, although the Cbeta distance between Arg298 residues of the wild-type enzyme (5.4 A apart) was too large to predict stable formation of an engineered disulfide cross-link. Disulfide bonding was associated with local disordering of interface loop II (residues 277-300), which suggested that the structural plasticity of the loop allowed hyperstabilization by disulfide formation. Another conformational change in the C-terminal region led to intersubunit hydrogen bonding between Arg7 and Asp312, which probably promoted mutant thermostability. Knowledge of the disulfide linkage of flexible loops at the subunit interface will help in the development of new strategies for enhancing the thermostabilization of multimeric proteins.
| + | |
| | | | |
| - | Hyperstabilization of Tetrameric Bacillus sp. TB-90 Urate Oxidase by Introducing Disulfide Bonds through Structural Plasticity.,Hibi T, Kume A, Kawamura A, Itoh T, Fukada H, Nishiya Y Biochemistry. 2016 Jan 15. PMID:26739254<ref>PMID:26739254</ref>
| + | ==See Also== |
| - | | + | *[[Urate oxidase 3D structures|Urate oxidase 3D structures]] |
| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
| + | |
| - | </div>
| + | |
| - | <div class="pdbe-citations 5yj2" style="background-color:#fffaf0;"></div>
| + | |
| - | == References ==
| + | |
| - | <references/>
| + | |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Hibi, T]] | + | [[Category: Bacillus sp. TB-90]] |
| - | [[Category: Itoh, T]] | + | [[Category: Large Structures]] |
| - | [[Category: Nishiya, Y]] | + | [[Category: Hibi T]] |
| - | [[Category: Dehydration]] | + | [[Category: Itoh T]] |
| - | [[Category: Environmental adaptation]] | + | [[Category: Nishiya Y]] |
| - | [[Category: Enzyme catalysis]]
| + | |
| - | [[Category: Humid control]]
| + | |
| - | [[Category: Oxidation]]
| + | |
| - | [[Category: Oxidoreductase]]
| + | |
| - | [[Category: Water square]]
| + | |
