3j7l

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<SX load='3j7l' size='340' side='right' viewer='molstar' caption='[[3j7l]], [[Resolution|resolution]] 3.80&Aring;' scene=''>
<SX load='3j7l' size='340' side='right' viewer='molstar' caption='[[3j7l]], [[Resolution|resolution]] 3.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[3j7l]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Brome_mosaic_virus Brome mosaic virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3J7L OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3J7L FirstGlance]. <br>
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<table><tr><td colspan='2'>[[3j7l]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Brome_mosaic_virus Brome mosaic virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3J7L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3J7L FirstGlance]. <br>
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</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3j7m|3j7m]], [[3j7n|3j7n]]</td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 3.8&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=3j7l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3j7l OCA], [http://pdbe.org/3j7l PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3j7l RCSB], [http://www.ebi.ac.uk/pdbsum/3j7l PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3j7l ProSAT]</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=3j7l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3j7l OCA], [https://pdbe.org/3j7l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3j7l RCSB], [https://www.ebi.ac.uk/pdbsum/3j7l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3j7l ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
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[[http://www.uniprot.org/uniprot/CAPSD_BMV CAPSD_BMV]] Capsid protein. Binds specifically to the subgenomic RNA4 to ensure selective packaging.
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[https://www.uniprot.org/uniprot/CAPSD_BMV CAPSD_BMV] Capsid protein. Binds specifically to the subgenomic RNA4 to ensure selective packaging.
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Advances in electron cryo-microscopy have enabled structure determination of macromolecules at near-atomic resolution. However, structure determination, even using de novo methods, remains susceptible to model bias and overfitting. Here we describe a complete workflow for data acquisition, image processing, all-atom modelling and validation of brome mosaic virus, an RNA virus. Data were collected with a direct electron detector in integrating mode and an exposure beyond the traditional radiation damage limit. The final density map has a resolution of 3.8 A as assessed by two independent data sets and maps. We used the map to derive an all-atom model with a newly implemented real-space optimization protocol. The validity of the model was verified by its match with the density map and a previous model from X-ray crystallography, as well as the internal consistency of models from independent maps. This study demonstrates a practical approach to obtain a rigorously validated atomic resolution electron cryo-microscopy structure.
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An atomic model of brome mosaic virus using direct electron detection and real-space optimization.,Wang Z, Hryc CF, Bammes B, Afonine PV, Jakana J, Chen DH, Liu X, Baker ML, Kao C, Ludtke SJ, Schmid MF, Adams PD, Chiu W Nat Commun. 2014 Sep 4;5:4808. doi: 10.1038/ncomms5808. PMID:25185801<ref>PMID:25185801</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 3j7l" style="background-color:#fffaf0;"></div>
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==See Also==
==See Also==
*[[Virus coat proteins 3D structures|Virus coat proteins 3D structures]]
*[[Virus coat proteins 3D structures|Virus coat proteins 3D structures]]
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== References ==
 
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<references/>
 
__TOC__
__TOC__
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[[Category: Brome mosaic virus]]
[[Category: Brome mosaic virus]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Adams, P D]]
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[[Category: Adams PD]]
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[[Category: Afonine, P V]]
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[[Category: Afonine PV]]
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[[Category: Baker, M L]]
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[[Category: Baker ML]]
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[[Category: Bammes, B]]
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[[Category: Bammes B]]
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[[Category: Chen, D H]]
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[[Category: Chen DH]]
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[[Category: Chiu, W]]
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[[Category: Chiu W]]
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[[Category: Hryc, C]]
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[[Category: Hryc C]]
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[[Category: Jakana, J]]
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[[Category: Jakana J]]
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[[Category: Kao, C]]
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[[Category: Kao C]]
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[[Category: Liu, X]]
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[[Category: Liu X]]
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[[Category: Ludtke, S J]]
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[[Category: Ludtke SJ]]
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[[Category: Schmid, M F]]
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[[Category: Schmid MF]]
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[[Category: Wang, Z]]
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[[Category: Wang Z]]
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[[Category: Beta barrel]]
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[[Category: Bmv]]
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[[Category: Capsid protein]]
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[[Category: Virus]]
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Current revision

Full virus map of brome mosaic virus

3j7l, resolution 3.80Å

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OCA

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