2vbk: Difference between revisions

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-{{Seed}}
-[[Image:2vbk.png|left|200px]]
-<!--
+==NATIVE TAILSPIKE PROTEIN OF BACTERIOPHAGE SF6==
-The line below this paragraph, containing "STRUCTURE_2vbk", creates the "Structure Box" on the page.
+<StructureSection load='2vbk' size='340' side='right'caption='[[2vbk]], [[Resolution|resolution]] 1.25&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[2vbk]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Shigella_virus_Sf6 Shigella virus Sf6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VBK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VBK FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.25&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CO2:CARBON+DIOXIDE'>CO2</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PGR:R-1,2-PROPANEDIOL'>PGR</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-{{STRUCTURE_2vbk|  PDB=2vbk  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2vbk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbk OCA], [https://pdbe.org/2vbk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vbk RCSB], [https://www.ebi.ac.uk/pdbsum/2vbk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vbk ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/FIBER_BPSFV FIBER_BPSFV] Non-covalently bound to the neck of the phage capsid and mediating attachment of the viral particle to host cell-surface polysaccharide. It displays endorhamnosidase enzymatic activity, hydrolyzing the alpha-1,3-O-glycosidic linkage between rhamnose and galactose of the O-antigen polysaccharide.<ref>PMID:18462681</ref> <ref>PMID:12424253</ref> <ref>PMID:6284</ref>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Sf6 belongs to the Podoviridae family of temperate bacteriophages that infect gram-negative bacteria by insertion of their double-stranded DNA. They attach to their hosts specifically via their tailspike proteins. The 1.25 A crystal structure of Shigella phage Sf6 tailspike protein (Sf6 TSP) reveals a conserved architecture with a central, right-handed beta helix. In the trimer of Sf6 TSP, the parallel beta helices form a left-handed, coiled-beta coil with a pitch of 340 A. The C-terminal domain consists of a beta sandwich reminiscent of viral capsid proteins. Further crystallographic and biochemical analyses show a Shigella cell wall O-antigen fragment to bind to an endorhamnosidase active site located between two beta-helix subunits each anchoring one catalytic carboxylate. The functionally and structurally related bacteriophage, P22 TSP, lacks sequence identity with Sf6 TSP and has its active sites on single subunits. Sf6 TSP may serve as an example for the evolution of different host specificities on a similar general architecture.
-===NATIVE TAILSPIKE PROTEIN OF BACTERIOPHAGE SF6===
+An intersubunit active site between supercoiled parallel beta helices in the trimeric tailspike endorhamnosidase of Shigella flexneri Phage Sf6.,Muller JJ, Barbirz S, Heinle K, Freiberg A, Seckler R, Heinemann U Structure. 2008 May;16(5):766-75. PMID:18462681<ref>PMID:18462681</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2vbk" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-VBK is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_sf6 Enterobacteria phage sf6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VBK OCA].
+*[[Tailspike protein 3D structures|Tailspike protein 3D structures]]
-[[Category: Enterobacteria phage sf6]]
+== References ==
-[[Category: Barbirz, S.]]
+<references/>
-[[Category: Freiberg, A.]]
+__TOC__
-[[Category: Heinemann, U.]]
+</StructureSection>
-[[Category: Heinle, K.]]
+[[Category: Large Structures]]
-[[Category: Mueller, J J.]]
+[[Category: Shigella virus Sf6]]
-[[Category: Seckler, R.]]
+[[Category: Barbirz S]]
-[[Category: Endorhamnosidase]]
+[[Category: Freiberg A]]
-[[Category: Hydrolase]]
+[[Category: Heinemann U]]
-[[Category: Right-handed parallel beta-helix]]
+[[Category: Heinle K]]
-[[Category: Tailspike]]
+[[Category: Mueller JJ]]
-[[Category: Viral adhesion protein]]
+[[Category: Seckler R]]
-[[Category: Viral protein]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 22 11:26:25 2009''