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2by0
From Proteopedia
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| - | [[Image:2by0.gif|left|200px]]<br /> | ||
| - | <applet load="2by0" size="450" color="white" frame="true" align="right" spinBox="true" | ||
| - | caption="2by0, resolution 1.55Å" /> | ||
| - | '''IS RADIATION DAMAGE DEPENDENT ON THE DOSE-RATE USED DURING MACROMOLECULAR CRYSTALLOGRAPHY DATA COLLECTION'''<br /> | ||
| - | == | + | ==Is radiation damage dependent on the dose-rate used during macromolecular crystallography data collection== |
| - | This paper focuses on the radiation-damage effects when applying the same | + | <StructureSection load='2by0' size='340' side='right'caption='[[2by0]], [[Resolution|resolution]] 1.55Å' scene=''> |
| + | == Structural highlights == | ||
| + | <table><tr><td colspan='2'>[[2by0]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Deinococcus_radiodurans_R1 Deinococcus radiodurans R1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BY0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BY0 FirstGlance]. <br> | ||
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.55Å</td></tr> | ||
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=PRD_900006:trehalose'>PRD_900006</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></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=2by0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2by0 OCA], [https://pdbe.org/2by0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2by0 RCSB], [https://www.ebi.ac.uk/pdbsum/2by0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2by0 ProSAT]</span></td></tr> | ||
| + | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/TREZ_DEIRA TREZ_DEIRA] | ||
| + | == Evolutionary Conservation == | ||
| + | [[Image:Consurf_key_small.gif|200px|right]] | ||
| + | Check<jmol> | ||
| + | <jmolCheckbox> | ||
| + | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/by/2by0_consurf.spt"</scriptWhenChecked> | ||
| + | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | ||
| + | <text>to colour the structure by Evolutionary Conservation</text> | ||
| + | </jmolCheckbox> | ||
| + | </jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2by0 ConSurf]. | ||
| + | <div style="clear:both"></div> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | This paper focuses on the radiation-damage effects when applying the same total X-ray dose to protein crystals at different dose rates. These experiments have been performed on both a selenomethionated protein and on bovine trypsin using dose rates that span nearly two orders of magnitude. The results show no clear dose-rate effect on the global indicators of radiation damage, but a small measurable dose-rate effect could be found when studying specific radiation damage. It is hypothesized that this observed dose-rate effect relates to differences in the steady-state free-radical concentration. | ||
| - | + | Is radiation damage dependent on the dose rate used during macromolecular crystallography data collection?,Leiros HK, Timmins J, Ravelli RB, McSweeney SM Acta Crystallogr D Biol Crystallogr. 2006 Feb;62(Pt 2):125-32. Epub 2006, Jan 18. PMID:16421442<ref>PMID:16421442</ref> | |
| - | + | ||
| - | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
| - | + | </div> | |
| - | + | <div class="pdbe-citations 2by0" style="background-color:#fffaf0;"></div> | |
| - | [[Category: Deinococcus radiodurans]] | + | == References == |
| - | [[Category: | + | <references/> |
| - | [[Category: Leiros | + | __TOC__ |
| - | [[Category: | + | </StructureSection> |
| - | [[Category: Ravelli | + | [[Category: Deinococcus radiodurans R1]] |
| - | [[Category: Timmins | + | [[Category: Large Structures]] |
| - | + | [[Category: Leiros H-KS]] | |
| - | + | [[Category: McSweeney SM]] | |
| - | + | [[Category: Ravelli RBG]] | |
| - | + | [[Category: Timmins J]] | |
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Current revision
Is radiation damage dependent on the dose-rate used during macromolecular crystallography data collection
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