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| | <SX load='6a7f' size='340' side='right' viewer='molstar' caption='[[6a7f]], [[Resolution|resolution]] 3.40Å' scene=''> | | <SX load='6a7f' size='340' side='right' viewer='molstar' caption='[[6a7f]], [[Resolution|resolution]] 3.40Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6a7f]] is a 30 chain structure with sequence from [http://en.wikipedia.org/wiki/Filamentous_phage Filamentous phage]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6A7F OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6A7F FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6a7f]] is a 30 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_phage_IKe Salmonella phage IKe]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6A7F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6A7F FirstGlance]. <br> |
| - | </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=6a7f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6a7f OCA], [http://pdbe.org/6a7f PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6a7f RCSB], [http://www.ebi.ac.uk/pdbsum/6a7f PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6a7f ProSAT]</span></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 3.4Å</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=6a7f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6a7f OCA], [https://pdbe.org/6a7f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6a7f RCSB], [https://www.ebi.ac.uk/pdbsum/6a7f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6a7f ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/CAPSD_BPIKE CAPSD_BPIKE]] Self assembles to form a helical capsid wrapping up the viral genomic DNA. The capsid displays a filamentous structure with a length of 760-1950 nm and a width of 6-8 nm. The virion assembly and budding take place at the host inner membrane (By similarity). | + | [https://www.uniprot.org/uniprot/CAPSD_BPIKE CAPSD_BPIKE] Self assembles to form a helical capsid wrapping up the viral genomic DNA. The capsid displays a filamentous structure with a length of 760-1950 nm and a width of 6-8 nm. The virion assembly and budding take place at the host inner membrane (By similarity). |
| - | <div style="background-color:#fffaf0;">
| + | |
| - | == Publication Abstract from PubMed ==
| + | |
| - | The filamentous bacteriophage IKe infects Escherichia coli cells bearing IncN pili. We report the cryo-electron microscopy structure of the micrometer-long IKe viral particle at a resolution of 3.4 A. The major coat protein [protein 8 (p8)] consists of 47 residues that fold into a approximately 68-A-long helix. An atomic model of the coat protein was built. Five p8 helices in a horizontal layer form a pentamer, and symmetrically neighboring p8 layers form a right-handed helical cylinder having a rise per pentamer of 16.77 A and a twist of 38.52 degrees . The inner surface of the capsid cylinder is positively charged and has direct interactions with the encapsulated circular single-stranded DNA genome, which has an electron density consistent with an unusual left-handed helix structure. Similar to capsid structures of other filamentous viruses, strong capsid packing in the IKe particle is maintained by hydrophobic residues. Despite having a different length and large sequence differences from other filamentous phages, pi-pi interactions were found between Tyr9 of one p8 and Trp29 of a neighboring p8 in IKe that are similar to interactions observed in phage M13, suggesting that, despite sequence divergence, overall structural features are maintained.
| + | |
| - | | + | |
| - | Cryo-electron microscopy structure of the filamentous bacteriophage IKe.,Xu J, Dayan N, Goldbourt A, Xiang Y Proc Natl Acad Sci U S A. 2019 Feb 28. pii: 1811929116. doi:, 10.1073/pnas.1811929116. PMID:30819888<ref>PMID:30819888</ref>
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| - | | + | |
| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
| + | |
| - | </div>
| + | |
| - | <div class="pdbe-citations 6a7f" style="background-color:#fffaf0;"></div>
| + | |
| - | == References ==
| + | |
| - | <references/>
| + | |
| | __TOC__ | | __TOC__ |
| | </SX> | | </SX> |
| - | [[Category: Filamentous phage]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Dayan, N]] | + | [[Category: Salmonella phage IKe]] |
| - | [[Category: Goldbourt, A]] | + | [[Category: Dayan N]] |
| - | [[Category: Xiang, Y]] | + | [[Category: Goldbourt A]] |
| - | [[Category: Xu, J W]] | + | [[Category: Xiang Y]] |
| - | [[Category: Filamentous bacteriophage]]
| + | [[Category: Xu JW]] |
| - | [[Category: Major coat protein]]
| + | |
| - | [[Category: Viral protein]]
| + | |
