1qlw: Difference between revisions

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-[[Image:1qlw.jpg|left|200px]]<br /><applet load="1qlw" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1qlw, resolution 1.09&Aring;" />
-'''THE ATOMIC RESOLUTION STRUCTURE OF A NOVEL BACTERIAL ESTERASE'''<br />
-==Overview==
+==The Atomic Resolution Structure of a Novel Bacterial Esterase==
-Background: A novel bacterial esterase that cleaves esters on halogenated, cyclic compounds has been isolated from an Alcaligenes species. This, esterase 713 is encoded by a 1062 base pair gene. The presence of a leader, sequence of 27 amino acids suggests that this enzyme is exported from the, cytosol. Esterase 713 has been over-expressed in Agrobacterium without, this leader sequence. Its amino acid sequence shows no significant, homology to any known protein sequence. Results: The crystal structure of, esterase 713 has been determined by multiple isomorphous replacement and, refined to 1. 1 A resolution. The subunits of this dimeric enzyme comprise, a single domain with an alpha/beta hydrolase fold. The catalytic triad has, been identified as Ser206-His298-Glu230. The acidic residue of the, catalytic triad (Glu230) is located on the beta6 strand of the alpha/beta, hydrolase fold, whereas most other alpha/beta hydrolase enzymes have the, acidic residue located on the beta7 strand. The oxyanion hole is formed by, the mainchain nitrogens of Cys71 and Gln207 as identified by the binding, of a substrate analogue, (S)-7-iodo-2,3,4,5-tetrahydro-4-methyl-3-oxo-1H-1, 4-benzodiazepine-2-acetic acid. Cys71 forms a disulphide bond with the, neighbouring Cys72. Conclusions: Despite negligible sequence homology, esterase 713 has structural similarities to a number of other esterases, and lipases. Residues of the oxyanion hole were confirmed by structural, comparison with Rhizomucor miehei lipase. It is proposed that completion, of a functional active site requires the formation of the disulphide bond, between adjacent residues Cys71 and Cys72 on export of the esterase into, the oxidising environment of the periplasmic space.
+<StructureSection load='1qlw' size='340' side='right'caption='[[1qlw]], [[Resolution|resolution]] 1.09&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1qlw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Alcaligenes_sp. Alcaligenes sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QLW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1QLW 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]] 1.09&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=1qlw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qlw OCA], [https://pdbe.org/1qlw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1qlw RCSB], [https://www.ebi.ac.uk/pdbsum/1qlw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1qlw ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q7SIA5_ALCSP Q7SIA5_ALCSP]
+== 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/ql/1qlw_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=1qlw ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Background: A novel bacterial esterase that cleaves esters on halogenated cyclic compounds has been isolated from an Alcaligenes species. This esterase 713 is encoded by a 1062 base pair gene. The presence of a leader sequence of 27 amino acids suggests that this enzyme is exported from the cytosol. Esterase 713 has been over-expressed in Agrobacterium without this leader sequence. Its amino acid sequence shows no significant homology to any known protein sequence. Results: The crystal structure of esterase 713 has been determined by multiple isomorphous replacement and refined to 1. 1 A resolution. The subunits of this dimeric enzyme comprise a single domain with an alpha/beta hydrolase fold. The catalytic triad has been identified as Ser206-His298-Glu230. The acidic residue of the catalytic triad (Glu230) is located on the beta6 strand of the alpha/beta hydrolase fold, whereas most other alpha/beta hydrolase enzymes have the acidic residue located on the beta7 strand. The oxyanion hole is formed by the mainchain nitrogens of Cys71 and Gln207 as identified by the binding of a substrate analogue, (S)-7-iodo-2,3,4,5-tetrahydro-4-methyl-3-oxo-1H-1, 4-benzodiazepine-2-acetic acid. Cys71 forms a disulphide bond with the neighbouring Cys72. Conclusions: Despite negligible sequence homology, esterase 713 has structural similarities to a number of other esterases and lipases. Residues of the oxyanion hole were confirmed by structural comparison with Rhizomucor miehei lipase. It is proposed that completion of a functional active site requires the formation of the disulphide bond between adjacent residues Cys71 and Cys72 on export of the esterase into the oxidising environment of the periplasmic space.
-==About this Structure==
+The atomic-resolution structure of a novel bacterial esterase.,Bourne PC, Isupov MN, Littlechild JA Structure. 2000 Feb 15;8(2):143-51. PMID:10673440<ref>PMID:10673440</ref>
-QLW is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Alcaligenes_sp. Alcaligenes sp.] with SO4 as [http://en.wikipedia.org/wiki/ligand ligand]. Known structural/functional Sites: <scene name='pdbsite=CS1:Catalytic Site'>CS1</scene> and <scene name='pdbsite=CS2:Catalytic Site'>CS2</scene>. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1QLW OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-The atomic-resolution structure of a novel bacterial esterase., Bourne PC, Isupov MN, Littlechild JA, Structure. 2000 Feb 15;8(2):143-51. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10673440 10673440]
+</div>
-[[Category: Alcaligenes sp.]]
+<div class="pdbe-citations 1qlw" style="background-color:#fffaf0;"></div>
-[[Category: Single protein]]
+== References ==
-[[Category: Bourne, P.C.]]
+<references/>
-[[Category: Isupov, M.N.]]
+__TOC__
-[[Category: Littlechild, J.A.]]
+</StructureSection>
-[[Category: SO4]]
+[[Category: Alcaligenes sp]]
-[[Category: alpha/beta hydrolase]]
+[[Category: Large Structures]]
-[[Category: anisotropic refinement]]
+[[Category: Bourne PC]]
-[[Category: atomic resolution]]
+[[Category: Isupov MN]]
-[[Category: esterase]]
+[[Category: Littlechild JA]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Dec 18 17:56:37 2007''