3hdf: Difference between revisions

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-{{Seed}}
-[[Image:3hdf.png|left|200px]]
-<!--
+==Crystal structure of truncated endolysin R21 from phage 21==
-The line below this paragraph, containing "STRUCTURE_3hdf", creates the "Structure Box" on the page.
+<StructureSection load='3hdf' size='340' side='right'caption='[[3hdf]], [[Resolution|resolution]] 1.70&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'>[[3hdf]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterobacteria_phage_P21 Enterobacteria phage P21]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HDF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HDF 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]] 1.7&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
-{{STRUCTURE_3hdf|  PDB=3hdf  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3hdf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hdf OCA], [https://pdbe.org/3hdf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hdf RCSB], [https://www.ebi.ac.uk/pdbsum/3hdf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hdf ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/ENLYS_BPP21 ENLYS_BPP21] Signal-arrest-release (SAR) endolysin with lysozyme activity that degrades host peptidoglycans and participates with the pinholin and spanin proteins in the sequential events which lead to programmed host cell lysis releasing the mature viral particles. Once the pinholin has permeabilized the host cell membrane, the SAR-endolysin is released into the periplasm where it breaks down the peptidoglycan layer.[HAMAP-Rule:MF_04136]
+== 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/hd/3hdf_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3hdf ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+R(21), the lysozyme of coliphage 21, has an N-terminal signal-anchor-release (SAR) domain that directs its secretion in a membrane-tethered, inactive form and then its release and activation in the periplasm. Both genetic and crystallographic studies show that the SAR domain, once extracted from the bilayer, refolds into the body of the enzyme and effects muralytic activation by repositioning one residue of the canonical lysozyme catalytic triad.
-===Crystal structure of truncated endolysin R21 from phage 21===
+Regulation of a muralytic enzyme by dynamic membrane topology.,Sun Q, Kuty GF, Arockiasamy A, Xu M, Young R, Sacchettini JC Nat Struct Mol Biol. 2009 Nov;16(11):1192-4. Epub 2009 Nov 1. PMID:19881499<ref>PMID:19881499</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3hdf" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_19881499}}, adds the Publication Abstract to the page
+*[[Lysozyme 3D structures|Lysozyme 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 19881499 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_19881499}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Enterobacteria phage P21]]
-HDF is a 2 chains structure with sequences from [http://en.wikipedia.org/wiki/Enterobacteria_phage_p21 Enterobacteria phage p21]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HDF OCA].
+[[Category: Large Structures]]
+[[Category: Sacchettini JC]]
-==Reference==
+[[Category: Sun Q]]
-<ref group="xtra">PMID:19881499</ref><references group="xtra"/>
-[[Category: Enterobacteria phage p21]]
-[[Category: Lysozyme]]
-[[Category: Sacchettini, J C.]]
-[[Category: Sun, Q.]]
-[[Category: Antimicrobial]]
-[[Category: Bacteriolytic enzyme]]
-[[Category: Glycosidase]]
-[[Category: Hydrolase]]
-[[Category: Late protein]]
-[[Category: Lysozyme-like]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 20 09:13:59 2010''