1ocy: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-[[Image:1ocy.gif|left|200px]]<br />
-<applet load="1ocy" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1ocy, resolution 1.500&Aring;" />
-'''STRUCTURE OF THE RECEPTOR-BINDING DOMAIN OF THE BACTERIOPHAGE T4 SHORT TAIL FIBRE'''<br />
-==Overview==
+==Structure of the receptor-binding domain of the bacteriophage T4 short tail fibre==
-Adsorption of T4 bacteriophage to the Escherichia coli host cell is, mediated by six long and six short tail fibres. After at least three long, tail fibres have bound, short tail fibres extend and bind irreversibly to, the core region of the host cell lipo-polysaccharide (LPS), serving as, inextensible stays during penetration of the cell envelope by the tail, tube. The short tail fibres consist of a parallel, in-register, trimer of, gene product 12 (gp12).X-ray crystallography at 1.5A resolution of a, protease-stable fragment of gp12 generated in the presence of zinc, chloride reveals the structure of the C-terminal receptor-binding domain., It has a novel "knitted" fold, consisting of three extensively intertwined, monomers. It reveals a metal-binding site, containing a zinc ion, coordinated by six histidine residues in an octahedral conformation. We, also suggest an LPS-binding region.
+<StructureSection load='1ocy' size='340' side='right'caption='[[1ocy]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1ocy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OCY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1OCY 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]] 1.5&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=1ocy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ocy OCA], [https://pdbe.org/1ocy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ocy RCSB], [https://www.ebi.ac.uk/pdbsum/1ocy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ocy ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/FIB12_BPT4 FIB12_BPT4] Structural component of the short tail fiber. Adhesion protein that binds irreversibly to the lipopolysaccharides component (LPS) on the cell surface of Escherichia coli B strains during virus attachment. After at least three long tail fibers have bound, short tail fibers extend and bind irreversibly to the core region of the host cell LPS.<ref>PMID:12837775</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/oc/1ocy_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=1ocy ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Adsorption of T4 bacteriophage to the Escherichia coli host cell is mediated by six long and six short tail fibres. After at least three long tail fibres have bound, short tail fibres extend and bind irreversibly to the core region of the host cell lipo-polysaccharide (LPS), serving as inextensible stays during penetration of the cell envelope by the tail tube. The short tail fibres consist of a parallel, in-register, trimer of gene product 12 (gp12).X-ray crystallography at 1.5A resolution of a protease-stable fragment of gp12 generated in the presence of zinc chloride reveals the structure of the C-terminal receptor-binding domain. It has a novel "knitted" fold, consisting of three extensively intertwined monomers. It reveals a metal-binding site, containing a zinc ion coordinated by six histidine residues in an octahedral conformation. We also suggest an LPS-binding region.
-==About this Structure==
+The structure of the receptor-binding domain of the bacteriophage T4 short tail fibre reveals a knitted trimeric metal-binding fold.,Thomassen E, Gielen G, Schutz M, Schoehn G, Abrahams JP, Miller S, van Raaij MJ J Mol Biol. 2003 Aug 8;331(2):361-73. PMID:12888344<ref>PMID:12888344</ref>
-OCY is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t2 Enterobacteria phage t2] with SO4, ZN and CIT as [http://en.wikipedia.org/wiki/ligands ligands]. Structure known Active Site: AC1. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1OCY OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-The structure of the receptor-binding domain of the bacteriophage T4 short tail fibre reveals a knitted trimeric metal-binding fold., Thomassen E, Gielen G, Schutz M, Schoehn G, Abrahams JP, Miller S, van Raaij MJ, J Mol Biol. 2003 Aug 8;331(2):361-73. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12888344 12888344]
+</div>
-[[Category: Enterobacteria phage t2]]
+<div class="pdbe-citations 1ocy" style="background-color:#fffaf0;"></div>
-[[Category: Single protein]]
+== References ==
-[[Category: Gielen, G.]]
+<references/>
-[[Category: Miller, S.]]
+__TOC__
-[[Category: Raaij, M.J.Van.]]
+</StructureSection>
-[[Category: Schuetz, M.]]
+[[Category: Escherichia virus T4]]
-[[Category: Thomassen, E.]]
+[[Category: Large Structures]]
-[[Category: CIT]]
+[[Category: Gielen G]]
-[[Category: SO4]]
+[[Category: Miller S]]
-[[Category: ZN]]
+[[Category: Schuetz M]]
-[[Category: bacteriophage structural protein]]
+[[Category: Thomassen E]]
-[[Category: baseplate protein]]
+[[Category: Van Raaij MJ]]
-[[Category: fibrous protein]]
-[[Category: gene product 12]]
-[[Category: lipo-polysaccharide binding]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov  5 15:33:35 2007''