1j8r: Difference between revisions

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OCA

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 ==BINARY COMPLEX OF THE PAPG RECEPTOR-BINDING DOMAIN BOUND TO GBO4 RECEPTOR==
-<StructureSection load='1j8r' size='340' side='right' caption='[[1j8r]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
+<StructureSection load='1j8r' size='340' side='right'caption='[[1j8r]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1j8r]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J8R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1J8R FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1j8r]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J8R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1J8R FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</td></tr>
-<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1j8r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j8r OCA], [http://pdbe.org/1j8r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1j8r RCSB], [http://www.ebi.ac.uk/pdbsum/1j8r PDBsum], [http://www.topsan.org/Proteins/MCSG/1j8r TOPSAN]</span></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=1j8r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j8r OCA], [https://pdbe.org/1j8r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1j8r RCSB], [https://www.ebi.ac.uk/pdbsum/1j8r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1j8r ProSAT], [https://www.topsan.org/Proteins/MCSG/1j8r TOPSAN]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/PAPG2_ECOLX PAPG2_ECOLX] Tip adhesin component of type P pili that plays a critical role in kidney infection through targeted interaction with the globoseries glycolipids containing the Gal-alpha(1-4)-Gal disaccharide present on uroepithelial cells (PubMed:11440716, PubMed:31361021). In turn, transcriptionally regulates host gene expression in kidney cells, leading to inflammatory pathway activation and renal tissue damage. Acts thereby as key determinant of invasive uropathogenic E.coli (UPEC), which cause pyelonephritis and urinary-source bacteremia (By similarity).[UniProtKB:A0A0H2VAQ6]<ref>PMID:11440716</ref> <ref>PMID:31361021</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/j8/1j8r_consurf.spt"</scriptWhenChecked>
+     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/j8/1j8r_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/chain_selection.php?pdb_ID=2ata ConSurf].
+</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=1j8r ConSurf].
 <div style="clear:both"></div>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-PapG is the adhesin at the tip of the P pilus that mediates attachment of uropathogenic Escherichia coli to the uroepithelium of the human kidney. The human specific allele of PapG binds to globoside (GbO4), which consists of the tetrasaccharide GalNAc beta 1-3Gal alpha 1-4Gal beta 1-4Glc linked to ceramide. Here, we present the crystal structures of a binary complex of the PapG receptor binding domain bound to GbO4 as well as the unbound form of the adhesin. The biological importance of each of the residues involved in binding was investigated by site-directed mutagenesis. These studies provide a molecular snapshot of a host-pathogen interaction that determines the tropism of uropathogenic E. coli for the human kidney and is critical to the pathogenesis of pyelonephritis.
-Structural basis of the interaction of the pyelonephritic E. coli adhesin to its human kidney receptor.,Dodson KW, Pinkner JS, Rose T, Magnusson G, Hultgren SJ, Waksman G Cell. 2001 Jun 15;105(6):733-43. PMID:11440716<ref>PMID:11440716</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 1j8r" style="background-color:#fffaf0;"></div>
-==See Also==
-*[[PapG receptor|PapG receptor]]
 == References ==
 <references/>
@@ Line 34: / Line 25: @@
 </StructureSection>
 [[Category: Escherichia coli]]
-[[Category: Dodson, K W]]
+[[Category: Large Structures]]
-[[Category: Hultgren, S J]]
+[[Category: Dodson KW]]
-[[Category: Structural genomic]]
+[[Category: Hultgren SJ]]
-[[Category: Magnusson, G]]
+[[Category: Magnusson G]]
-[[Category: Pinkner, J S]]
+[[Category: Pinkner JS]]
-[[Category: Rose, T]]
+[[Category: Rose T]]
-[[Category: Waksman, G]]
+[[Category: Waksman G]]
-[[Category: Gbo4]]
-[[Category: Mcsg]]
-[[Category: Pag adhesin]]
-[[Category: PSI, Protein structure initiative]]
-[[Category: Structural protein]]