2fz2: Difference between revisions
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New page: left|200px<br /><applet load="2fz2" size="450" color="white" frame="true" align="right" spinBox="true" caption="2fz2, resolution 2.90Å" /> '''Structure of Turnip ... |
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== | ==Structure of Turnip Yellow Mosaic Virus at 100 K== | ||
Difference electron density maps, based on structure factor amplitudes and | <StructureSection load='2fz2' size='340' side='right'caption='[[2fz2]], [[Resolution|resolution]] 2.90Å' scene=''> | ||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[2fz2]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Turnip_yellow_mosaic_virus_(Australian_isolate) Turnip yellow mosaic virus (Australian isolate)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FZ2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FZ2 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]] 2.9Å</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=2fz2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fz2 OCA], [https://pdbe.org/2fz2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fz2 RCSB], [https://www.ebi.ac.uk/pdbsum/2fz2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fz2 ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/COAT_TYMVA COAT_TYMVA] | |||
== 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/fz/2fz2_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=2fz2 ConSurf]. | |||
<div style="clear:both"></div> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Difference electron density maps, based on structure factor amplitudes and experimental phases from crystals of wild-type turnip yellow mosaic virus and those of empty capsids prepared by freeze-thawing, show a large portion of the encapsidated RNA to have an icosahedral distribution. Four unique segments of base-paired, double-helical RNA, one to two turns in length, lie between 33-A and 101-A radius and are organized about either 2-fold or 5-fold icosahedral axes. In addition, single-stranded loops of RNA invade the pentameric and hexameric capsomeres where they contact the interior capsid surface. The remaining RNA, not seen in electron density maps, must serve as connecting links between these secondary structural elements and is likely icosahedrally disordered. The distribution of RNA observed crystallographically appears to be in agreement with models based on biochemical data and secondary structural analyses. | |||
The RNA of turnip yellow mosaic virus exhibits icosahedral order.,Larson SB, Lucas RW, Greenwood A, McPherson A Virology. 2005 Apr 10;334(2):245-54. PMID:15780874<ref>PMID:15780874</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 2fz2" style="background-color:#fffaf0;"></div> | |||
[[Category: | == References == | ||
[[Category: Larson | <references/> | ||
[[Category: Lucas | __TOC__ | ||
[[Category: McPherson | </StructureSection> | ||
[[Category: Large Structures]] | |||
[[Category: Larson SB]] | |||
[[Category: Lucas RW]] | |||
[[Category: McPherson A]] | |||
Latest revision as of 12:33, 30 August 2023
Structure of Turnip Yellow Mosaic Virus at 100 KStructure of Turnip Yellow Mosaic Virus at 100 K
Structural highlights
FunctionEvolutionary Conservation Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf. Publication Abstract from PubMedDifference electron density maps, based on structure factor amplitudes and experimental phases from crystals of wild-type turnip yellow mosaic virus and those of empty capsids prepared by freeze-thawing, show a large portion of the encapsidated RNA to have an icosahedral distribution. Four unique segments of base-paired, double-helical RNA, one to two turns in length, lie between 33-A and 101-A radius and are organized about either 2-fold or 5-fold icosahedral axes. In addition, single-stranded loops of RNA invade the pentameric and hexameric capsomeres where they contact the interior capsid surface. The remaining RNA, not seen in electron density maps, must serve as connecting links between these secondary structural elements and is likely icosahedrally disordered. The distribution of RNA observed crystallographically appears to be in agreement with models based on biochemical data and secondary structural analyses. The RNA of turnip yellow mosaic virus exhibits icosahedral order.,Larson SB, Lucas RW, Greenwood A, McPherson A Virology. 2005 Apr 10;334(2):245-54. PMID:15780874[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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