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| <StructureSection load='6ybo' size='340' side='right'caption='[[6ybo]], [[Resolution|resolution]] 1.06Å' scene=''> | | <StructureSection load='6ybo' size='340' side='right'caption='[[6ybo]], [[Resolution|resolution]] 1.06Å' scene=''> |
| == Structural highlights == | | == Structural highlights == |
- | <table><tr><td colspan='2'>[[6ybo]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_rubiginosus Streptomyces rubiginosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6YBO OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6YBO FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6ybo]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_rubiginosus Streptomyces rubiginosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6YBO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6YBO FirstGlance]. <br> |
- | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 1.06Å</td></tr> |
- | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[6ybf|6ybf]], [[6ybi|6ybi]]</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr> |
- | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Xylose_isomerase Xylose isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.5 5.3.1.5] </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=6ybo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ybo OCA], [https://pdbe.org/6ybo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ybo RCSB], [https://www.ebi.ac.uk/pdbsum/6ybo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ybo ProSAT]</span></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=6ybo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ybo OCA], [http://pdbe.org/6ybo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ybo RCSB], [http://www.ebi.ac.uk/pdbsum/6ybo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ybo ProSAT]</span></td></tr> | + | |
| </table> | | </table> |
| == Function == | | == Function == |
- | [[http://www.uniprot.org/uniprot/XYLA_STRRU XYLA_STRRU]] Involved in D-xylose catabolism. | + | [https://www.uniprot.org/uniprot/XYLA_STRRU XYLA_STRRU] Involved in D-xylose catabolism. |
| <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| [[Category: Large Structures]] | | [[Category: Large Structures]] |
| [[Category: Streptomyces rubiginosus]] | | [[Category: Streptomyces rubiginosus]] |
- | [[Category: Xylose isomerase]]
| + | [[Category: Gavira JA]] |
- | [[Category: Gavira, J A]] | + | [[Category: Martinez-Rodriguez S]] |
- | [[Category: Martinez-Rodriguez, S]] | + | |
- | [[Category: D-xylose ketol isomerase]]
| + | |
- | [[Category: Isomerase]]
| + | |
| Structural highlights
Function
XYLA_STRRU Involved in D-xylose catabolism.
Publication Abstract from PubMed
Sample handling and manipulation for cryoprotection currently remain critical factors in X-ray structural determination. While several microchips for macromolecular crystallization have been proposed during the last two decades to partially overcome crystal-manipulation issues, increased background noise originating from the scattering of chip-fabrication materials has so far limited the attainable resolution of diffraction data. Here, the conception and use of low-cost, X-ray-transparent microchips for in situ crystallization and direct data collection, and structure determination at atomic resolution close to 1.0 A, is presented. The chips are fabricated by a combination of either OSTEMER and Kapton or OSTEMER and Mylar materials for the implementation of counter-diffusion crystallization experiments. Both materials produce a sufficiently low scattering background to permit atomic resolution diffraction data collection at room temperature and the generation of 3D structural models of the tested model proteins lysozyme, thaumatin and glucose isomerase. Although the high symmetry of the three model protein crystals produced almost complete data sets at high resolution, the potential of in-line data merging and scaling of the multiple crystals grown along the microfluidic channels is also presented and discussed.
Attaining atomic resolution from in situ data collection at room temperature using counter-diffusion-based low-cost microchips.,Gavira JA, Rodriguez-Ruiz I, Martinez-Rodriguez S, Basu S, Teychene S, McCarthy AA, Mueller-Dieckman C Acta Crystallogr D Struct Biol. 2020 Aug 1;76(Pt 8):751-758. doi:, 10.1107/S2059798320008475. Epub 2020 Jul 27. PMID:32744257[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Gavira JA, Rodriguez-Ruiz I, Martinez-Rodriguez S, Basu S, Teychene S, McCarthy AA, Mueller-Dieckman C. Attaining atomic resolution from in situ data collection at room temperature using counter-diffusion-based low-cost microchips. Acta Crystallogr D Struct Biol. 2020 Aug 1;76(Pt 8):751-758. doi:, 10.1107/S2059798320008475. Epub 2020 Jul 27. PMID:32744257 doi:http://dx.doi.org/10.1107/S2059798320008475
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