6ukc: Difference between revisions

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-'''Unreleased structure'''
-The entry 6ukc is ON HOLD
+==Crystal structure of a lysozyme from Litopenaeus vannamei==
+<StructureSection load='6ukc' size='340' side='right'caption='[[6ukc]], [[Resolution|resolution]] 2.25&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[6ukc]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Penaeus_vannamei Penaeus vannamei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6UKC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6UKC 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]] 2.25&#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></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=6ukc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ukc OCA], [https://pdbe.org/6ukc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ukc RCSB], [https://www.ebi.ac.uk/pdbsum/6ukc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ukc ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q95V66_PENVA Q95V66_PENVA]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Although information about invertebrate lysozymes is scarce, these enzymes have been described as components of the innate immune system, functioning as antibacterial proteins. Here we describe the first thermodynamic and structural study of a new C-type lysozyme from a Pacific white shrimp Litopenaeus vannamei (LvL), which has shown high activity against both Gram (+) and Gram (-) bacteria including Vibrio sp. that is one of the most severe pathogens in penaeid shrimp aquaculture. Compared with hen egg-white lysozyme, its sequence harbors a seven-residue insertion from amino acid 97 to 103, and a nine-residue extension at the C-terminus only found in penaeid crustaceans, making this enzyme one of the longest lysozyme reported to date. LvL was crystallized in the presence and absence of chitotriose. The former crystallized as a monomer in space group P61 and the latter in P212121 with two monomers in the asymmetric unit. Since the enzyme crystallized at a pH where lysozyme activity is deficient, the ligand could not be observed in the P61 structure; therefore, we performed a docking simulation with chitotriose to compare with the hen egg lysozyme crystallized in the presence of the ligand. Remarkably, additional amino acids in LvL caused an increase in the length of alpha-helix H4 (residues 97-103) that is directly related to ligand recognition. The Ka for chitotriose (4.1 x 10(5) M(-1)), as determined by Isothermal Titration Calorimetry, was one order of magnitude higher than those for lysozymes from hen and duck eggs. Our results revealed new interactions of chitiotriose with residues in helix H4.
-Authors: Hernandez-Santoyo, A., Rodriguez-Romero, A.
+Crystal structure of a C-type lysozyme from Litopenaeus vanamei exhibiting a high binding constant to its chitotriose inhibitor.,Vargas-Requena CL, Rodriguez-Romero A, Garcia-Ramirez B, Sotelo-Mundo RR, Hernandez-Santoyo A Fish Shellfish Immunol. 2020 Mar 6;100:246-255. doi: 10.1016/j.fsi.2020.03.010. PMID:32151687<ref>PMID:32151687</ref>
-Description: Crystal structure of a lysozyme from Litopenaeus vannamei
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Hernandez-Santoyo, A]]
+<div class="pdbe-citations 6ukc" style="background-color:#fffaf0;"></div>
-[[Category: Rodriguez-Romero, A]]
+==See Also==
+*[[Lysozyme 3D structures|Lysozyme 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Penaeus vannamei]]
+[[Category: Hernandez-Santoyo A]]
+[[Category: Rodriguez-Romero A]]