This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.
Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.
3ddx
From Proteopedia
(Difference between revisions)
| (8 intermediate revisions not shown.) | |||
| Line 1: | Line 1: | ||
| - | [[Image:3ddx.png|left|200px]] | ||
| - | + | ==HK97 bacteriophage capsid Expansion Intermediate-II model== | |
| - | + | <SX load='3ddx' size='340' side='right' viewer='molstar' caption='[[3ddx]]' scene=''> | |
| - | + | == Structural highlights == | |
| - | + | <table><tr><td colspan='2'>[[3ddx]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_HK97 Escherichia virus HK97]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DDX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DDX FirstGlance]. <br> | |
| - | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy</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=3ddx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ddx OCA], [https://pdbe.org/3ddx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ddx RCSB], [https://www.ebi.ac.uk/pdbsum/3ddx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ddx ProSAT]</span></td></tr> | |
| - | == | + | </table> |
| - | [[3ddx]] is a 7 chain structure with sequence from [ | + | == Function == |
| - | + | [https://www.uniprot.org/uniprot/CAPSD_BPHK7 CAPSD_BPHK7] Assembles to form an icosahedral capsid of 66 nm, with a T=7 laevo symmetry (PubMed:11000116, PubMed:21276801). Responsible for its self-assembly into a procapsid. The phage does not need to encode a separate scaffolfing protein because its capsid protein contains the delta domain that carries that function.<ref>PMID:11000116</ref> <ref>PMID:21276801</ref> <ref>PMID:7669350</ref> <ref>PMID:7723020</ref> | |
| - | == | + | == 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/dd/3ddx_consurf.spt"</scriptWhenChecked> |
| - | [[ | + | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> |
| - | [ | + | <text>to colour the structure by Evolutionary Conservation</text> |
| - | [[ | + | </jmolCheckbox> |
| - | [[Category: | + | </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=3ddx ConSurf]. |
| - | [[Category: | + | <div style="clear:both"></div> |
| - | [[Category: | + | == References == |
| - | [[Category: | + | <references/> |
| - | [[Category: | + | __TOC__ |
| - | [[Category: | + | </SX> |
| - | [[Category: | + | [[Category: Escherichia virus HK97]] |
| - | [[Category: | + | [[Category: Large Structures]] |
| + | [[Category: Conway JF]] | ||
| + | [[Category: Gan L]] | ||
| + | [[Category: Hendrix RW]] | ||
| + | [[Category: Johnson JE]] | ||
| + | [[Category: Lee KK]] | ||
| + | [[Category: Steven AC]] | ||
Current revision
HK97 bacteriophage capsid Expansion Intermediate-II model
| |||||||||
