1cvl: Difference between revisions

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-{{Seed}}
-[[Image:1cvl.png|left|200px]]
-<!--
+==CRYSTAL STRUCTURE OF BACTERIAL LIPASE FROM CHROMOBACTERIUM VISCOSUM ATCC 6918==
-The line below this paragraph, containing "STRUCTURE_1cvl", creates the "Structure Box" on the page.
+<StructureSection load='1cvl' size='340' side='right'caption='[[1cvl]], [[Resolution|resolution]] 1.60&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'>[[1cvl]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Chromobacterium_viscosum Chromobacterium viscosum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CVL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1CVL 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]] 1.6&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-{{STRUCTURE_1cvl|  PDB=1cvl  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1cvl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cvl OCA], [https://pdbe.org/1cvl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cvl RCSB], [https://www.ebi.ac.uk/pdbsum/1cvl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cvl ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/LIP_PSEPS LIP_PSEPS] Catalyzes the hydrolysis of triacylglycerol.<ref>PMID:7786905</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/cv/1cvl_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=1cvl ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The crystal structure of a lipase from the bacterium Chromobacterium viscosum ATCC 6918 (CVL) has been determined by isomorphous replacement and refined at 1.6 angstroms resolution to an R-factor of 17.8%. The lipase has the overall topology of an alpha/beta type protein, which was also found for previously determined lipase structures. The catalytic triad of the active center consists of the residues Ser87, Asp263 and His285. These residues are not exposed to the solvent, but a narrow channel connects them with the molecular surface. This conformation is very similar to the previously reported closed conformation of Pseudomonas glumae lipase (PGL), but superposition of the two lipase structures reveals several conformational differences. r.m.s. deviations greater than 2 angstroms are found for the C alpha-atoms of the polypeptide chains from His15 to Asp28, from Leu49 to Ser54 and from Lys128 to Gln158. Compared to the PGL structure in the CVL structure, three alpha-helical fragments are shorter, one beta-strand is longer and an additional antiparallel beta-sheet is found. In contrast to PGL, CVL displays an oxyanion hole, which is stabilized by the amide nitrogen atoms of Leu17 and Gln88, and a cis-peptide bond between Gln291 and Leu292. CVL contains a Ca2+, like the PGL, which is coordinated by four oxygen atoms from the protein and two water molecules.
-===CRYSTAL STRUCTURE OF BACTERIAL LIPASE FROM CHROMOBACTERIUM VISCOSUM ATCC 6918===
+Crystal structure of a bacterial lipase from Chromobacterium viscosum ATCC 6918 refined at 1.6 angstroms resolution.,Lang D, Hofmann B, Haalck L, Hecht HJ, Spener F, Schmid RD, Schomburg D J Mol Biol. 1996 Jun 21;259(4):704-17. PMID:8683577<ref>PMID:8683577</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1cvl" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_8683577}}, adds the Publication Abstract to the page
+*[[Lipase 3D Structures|Lipase 3D Structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 8683577 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_8683577}}
+__TOC__
+</StructureSection>
-==About this Structure==
-CVL is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Chromobacterium_viscosum Chromobacterium viscosum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CVL OCA].
-==Reference==
-<ref group="xtra">PMID:8683577</ref><references group="xtra"/>
 [[Category: Chromobacterium viscosum]]
-[[Category: Triacylglycerol lipase]]
+[[Category: Large Structures]]
-[[Category: Haalck, L.]]
+[[Category: Haalck L]]
-[[Category: Hecht, H J.]]
+[[Category: Hecht H-J]]
-[[Category: Hofmann, B.]]
+[[Category: Hofmann B]]
-[[Category: Lang, D A.]]
+[[Category: Lang DA]]
-[[Category: Schmid, R D.]]
+[[Category: Schmid RD]]
-[[Category: Schomburg, D.]]
+[[Category: Schomburg D]]
-[[Category: Spener, F.]]
+[[Category: Spener F]]
-[[Category: Cis-peptide]]
-[[Category: Hydrolase]]
-[[Category: Oxyanion]]
-[[Category: Pseudomonadaceae]]
-[[Category: Triacylglycerol-hydrolase]]
-[[Category: X-ray crystallography]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 00:53:52 2009''