3irp: Difference between revisions

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-{{Seed}}
-[[Image:3irp.jpg|left|200px]]
-<!--
+==Crystal structure of functional region of UafA from Staphylococcus saprophyticus at 1.50 angstrom resolution==
-The line below this paragraph, containing "STRUCTURE_3irp", creates the "Structure Box" on the page.
+<StructureSection load='3irp' size='340' side='right'caption='[[3irp]], [[Resolution|resolution]] 1.50&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'>[[3irp]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_saprophyticus_subsp._saprophyticus_ATCC_15305_=_NCTC_7292 Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IRP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IRP 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]] 1.5&#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=K:POTASSIUM+ION'>K</scene></td></tr>
-{{STRUCTURE_3irp|  PDB=3irp  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3irp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3irp OCA], [https://pdbe.org/3irp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3irp RCSB], [https://www.ebi.ac.uk/pdbsum/3irp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3irp ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/UAFA_STAS1 UAFA_STAS1]
+== 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/ir/3irp_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=3irp ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Staphylococci use cell wall-anchored proteins as adhesins to attach to host tissues. Staphylococcus saprophyticus, a uropathogenic species, has a unique cell wall-anchored protein, uro-adherence factor A (UafA), which shows erythrocyte binding activity. To investigate the mechanism of adhesion by UafA, we determined the crystal structure of the functional region of UafA at 1.5 A resolution. The structure was composed of three domains, designated as the N2, N3, and B domains, arranged in a triangular relative configuration. Hemagglutination inhibition assay with domain-truncated mutants indicated that both N and B domains were necessary for erythrocyte binding. Based on these results, a novel manner of ligand binding in which the B domain acts as a functional domain was proposed as the adhesion mechanism of S. saprophyticus.
-===Crystal structure of functional region of UafA from Staphylococcus saprophyticus at 1.50 angstrom resolution===
+Crystal structure of the functional region of Uro-adherence factor A from Staphylococcus saprophyticus reveals participation of the B domain in ligand binding.,Matsuoka E, Tanaka Y, Kuroda M, Shouji Y, Ohta T, Tanaka I, Yao M Protein Sci. 2011 Feb;20(2):406-16. doi: 10.1002/pro.573. PMID:21280131<ref>PMID:21280131</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-==About this Structure==
+</div>
-IRP is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_saprophyticus_subsp._saprophyticus Staphylococcus saprophyticus subsp. saprophyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IRP OCA].
+<div class="pdbe-citations 3irp" style="background-color:#fffaf0;"></div>
-[[Category: Staphylococcus saprophyticus subsp. saprophyticus]]
+== References ==
-[[Category: Kuroda, M.]]
+<references/>
-[[Category: Matsuoka, E.]]
+__TOC__
-[[Category: Shouji, Y.]]
+</StructureSection>
-[[Category: Tanaka, I.]]
+[[Category: Large Structures]]
-[[Category: Tanaka, Y.]]
+[[Category: Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 = NCTC 7292]]
-[[Category: Yao, M.]]
+[[Category: Kuroda M]]
-[[Category: Cell adhesion]]
+[[Category: Matsuoka E]]
-[[Category: Cell wall]]
+[[Category: Shouji Y]]
-[[Category: Dev-igg fold]]
+[[Category: Tanaka I]]
-[[Category: Hemagglutinin]]
+[[Category: Tanaka Y]]
-[[Category: Peptidoglycan-anchor]]
+[[Category: Yao M]]
-[[Category: Secreted]]
-[[Category: Virulence]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri Sep 10 13:56:09 2010''