5ixm: Difference between revisions

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 <StructureSection load='5ixm' size='340' side='right'caption='[[5ixm]], [[Resolution|resolution]] 2.75&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5ixm]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_pestis"_(lehmann_and_neumann_1896)_migula_1900 "bacillus pestis" (lehmann and neumann 1896) migula 1900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IXM OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5IXM FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5ixm]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Yersinia_pestis Yersinia pestis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5IXM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5IXM FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=C8E:(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE'>C8E</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]] 2.746&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5ixj|5ixj]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=C8E:(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE'>C8E</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">lptD, imp, ostA, YPO0495, y3680, YP_3684 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=632 "Bacillus pestis" (Lehmann and Neumann 1896) Migula 1900]), lptE, rlpB, YPO2609, y1183, YP_1104 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=632 "Bacillus pestis" (Lehmann and Neumann 1896) Migula 1900])</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=5ixm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ixm OCA], [https://pdbe.org/5ixm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ixm RCSB], [https://www.ebi.ac.uk/pdbsum/5ixm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ixm ProSAT]</span></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5ixm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ixm OCA], [http://pdbe.org/5ixm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ixm RCSB], [http://www.ebi.ac.uk/pdbsum/5ixm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ixm ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/LPTD_YERPE LPTD_YERPE]] Together with LptE, is involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane.[HAMAP-Rule:MF_01411] [[http://www.uniprot.org/uniprot/LPTE_YERPE LPTE_YERPE]] Together with LptD, is involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane. Required for the proper assembly of LptD. Binds LPS and may serve as the LPS recognition site at the outer membrane.
+[https://www.uniprot.org/uniprot/LPTD_YERPE LPTD_YERPE] Together with LptE, is involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane.[HAMAP-Rule:MF_01411]
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-Incorporation of lipopolysaccharide (LPS) into the outer membrane of Gram-negative bacteria is essential for viability, and is accomplished by a two-protein complex called LptDE. We solved crystal structures of the core LptDE complexes from Yersinia pestis, Klebsiella pneumoniae, Pseudomonas aeruginosa, and a full-length structure of the K. pneumoniae LptDE complex. Our structures adopt the same plug and 26-strand beta-barrel architecture found recently for the Shigella flexneri and Salmonella typhimurium LptDE structures, illustrating a conserved fold across the family. A comparison of the only two full-length structures, SfLptDE and our KpLptDE, reveals a 21 degrees rotation of the LptD N-terminal domain that may impart flexibility on the trans-envelope LptCAD scaffold. Utilizing mutagenesis coupled to an in vivo functional assay and molecular dynamics simulations, we demonstrate the critical role of Pro231 and Pro246 in the function of the LptD lateral gate that allows partitioning of LPS into the outer membrane.
-Structural and Functional Characterization of the LPS Transporter LptDE from Gram-Negative Pathogens.,Botos I, Majdalani N, Mayclin SJ, McCarthy JG, Lundquist K, Wojtowicz D, Barnard TJ, Gumbart JC, Buchanan SK Structure. 2016 May 3. pii: S0969-2126(16)30043-0. doi:, 10.1016/j.str.2016.03.026. PMID:27161977<ref>PMID:27161977</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 5ixm" style="background-color:#fffaf0;"></div>
-== References ==
-<references/>
 __TOC__
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Botos, I]]
+[[Category: Yersinia pestis]]
-[[Category: Buchanan, S K]]
+[[Category: Botos I]]
-[[Category: Mayclin, S J]]
+[[Category: Buchanan SK]]
-[[Category: McCarthy, J G]]
+[[Category: Mayclin SJ]]
-[[Category: Lipopolysaccharide]]
+[[Category: McCarthy JG]]
-[[Category: Lptd]]
-[[Category: Lpte]]
-[[Category: Transport protein]]
-[[Category: Transporter]]