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| | <StructureSection load='3uva' size='340' side='right'caption='[[3uva]], [[Resolution|resolution]] 2.69Å' scene=''> | | <StructureSection load='3uva' size='340' side='right'caption='[[3uva]], [[Resolution|resolution]] 2.69Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3uva]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_alcalophilus_subsp._halodurans"_boyer_et_al._1973 "bacillus alcalophilus subsp. halodurans" boyer et al. 1973]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UVA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UVA FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3uva]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Alkalihalobacillus_halodurans Alkalihalobacillus halodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UVA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UVA FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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]] 2.69Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3p14|3p14]], [[3uu0|3uu0]]</div></td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">rhaA, BH1552 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=86665 "Bacillus alcalophilus subsp. halodurans" Boyer et al. 1973])</td></tr> | + | |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/L-rhamnose_isomerase L-rhamnose isomerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.14 5.3.1.14] </span></td></tr>
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| | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3uva FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uva OCA], [https://pdbe.org/3uva PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3uva RCSB], [https://www.ebi.ac.uk/pdbsum/3uva PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3uva 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=3uva FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3uva OCA], [https://pdbe.org/3uva PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3uva RCSB], [https://www.ebi.ac.uk/pdbsum/3uva PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3uva ProSAT]</span></td></tr> |
| | </table> | | </table> |
| - | <div style="background-color:#fffaf0;">
| + | == Function == |
| - | == Publication Abstract from PubMed == | + | [https://www.uniprot.org/uniprot/RHAA_HALH5 RHAA_HALH5] Catalyzes the interconversion of L-rhamnose and L-rhamnulose.[HAMAP-Rule:MF_00541] |
| - | Two-metal-dependent sugar isomerases are important in the synthesis of rare sugars. Many of their properties, specifically their metal dependency, have not been sufficiently explored. Here we used X-ray crystallography, site-directed mutagenesis, isothermal titration calorimetry and electron paramagnetic resonance spectroscopy to investigate the molecular determinants of the metal-binding affinity of l-rhamnose isomerase, a two-Mn(2+) -dependent isomerase from Bacillus halodurans (BHRI). The crystal structure of BHRI confirmed the presence of two metal ion-binding sites: a structural metal ion-binding site for substrate binding, and a catalytic metal ion-binding site that catalyzes a hydride shift. One conserved amino acid, W38, in wild-type BHRI was identified as a critical residue for structural Mn(2+) binding and thus the catalytic efficiency of BHRI. This function of W38 was explored by replacing it with other amino acids. Substitution by Phe, His, Lys, Ile or Ala caused complete loss of catalytic activity. The role of W38 was further examined by analyzing the crystal structure of wild-type BHRI and two inactive mutants of BHRI (W38F and W38A) in complex with Mn(2+) . A structural comparison of the mutants and the wild-type revealed differences in their coordination of Mn(2+) , including changes in metal-ligand bond length and affinity for Mn(2+) . The role of W38 was further confirmed in another two-metal-dependent enzyme: xylose isomerase from Bacillus licheniformis. These data suggest that W38 stabilizes protein-metal complexes and in turn assists ligand binding during catalysis in two-metal-dependent isomerases. STRUCTURED DIGITAL ABSTRACT: BHRI and BHRI bind by x-ray crystallography (View interaction).
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| - | Structure-based studies on the metal binding of two-metal-dependent sugar isomerases.,Prabhu P, Doan TN, Tiwari M, Singh R, Kim SC, Hong MK, Kang YC, Kang LW, Lee JK FEBS J. 2014 Aug;281(15):3446-59. doi: 10.1111/febs.12872. Epub 2014 Jul 4. PMID:24925069<ref>PMID:24925069</ref>
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| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
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| - | </div>
| + | |
| - | <div class="pdbe-citations 3uva" style="background-color:#fffaf0;"></div>
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| | | | |
| | ==See Also== | | ==See Also== |
| | *[[L-rhamnose isomerase|L-rhamnose isomerase]] | | *[[L-rhamnose isomerase|L-rhamnose isomerase]] |
| - | == References == | |
| - | <references/> | |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Bacillus alcalophilus subsp. halodurans boyer et al. 1973]] | + | [[Category: Alkalihalobacillus halodurans]] |
| - | [[Category: L-rhamnose isomerase]]
| + | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Doan, T T.N]] | + | [[Category: Doan TTN]] |
| - | [[Category: Jeya, M]] | + | [[Category: Jeya M]] |
| - | [[Category: Kang, L W]] | + | [[Category: Kang LW]] |
| - | [[Category: Kim, J K]] | + | [[Category: Kim JK]] |
| - | [[Category: Lee, J K]] | + | [[Category: Lee JK]] |
| - | [[Category: Prabhu, P]] | + | [[Category: Prabhu P]] |
| - | [[Category: Isomerase]]
| + | |
