1tby: Difference between revisions

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-[[Image:1tby.jpg|left|200px]]<br /><applet load="1tby" size="350" color="white" frame="true" align="right" spinBox="true"
-caption="1tby, resolution 1.77&Aring;" />
-'''DISSECTION OF THE FUNCTIONAL ROLE OF STRUCTURAL ELEMENTS OF TYROSINE-63 IN THE CATALYTIC ACTION OF HUMAN LYSOZYME'''<br />
-==Overview==
+==DISSECTION OF THE FUNCTIONAL ROLE OF STRUCTURAL ELEMENTS OF TYROSINE-63 IN THE CATALYTIC ACTION OF HUMAN LYSOZYME==
-The functional role of tyrosine-63 in the catalytic action of human, lysozyme (EC 3.2.1.17) has been probed by site-directed mutagenesis. In, order to identify the role of Tyr63 in the interaction with substrate, both the three-dimensional structures and the enzymatic functions of the, mutants, in which Tyr63 was converted to phenylalanine, tryptophan, leucine, or alanine, have been characterized in comparison with those of, the wild-type enzyme. X-ray crystallographical analysis of the mutant, enzyme at not less than 1.77-A resolution indicated no remarkable change, in tertiary structure except the side chain of 63rd residue. The, conversion of Tyr63 to Phe or Trp did not change the enzymatic properties, against the noncharged substrate (or substrate analogs) largely, while the, conversion to Leu or Ala markedly reduced the catalytic activity to a few, percent of wild-type enzyme. Kinetic analysis using p-nitrophenyl, penta-N-acetyl-beta-(1----4)-chitopentaoside (PNP-(GlcNAc)5) as a, substrate revealed that the reduction of activity should mainly be, attributed to the reduction of affinity between enzyme and substrate. The, apparent contribution of the phenolic hydroxyl group and the phenol group, in the side chain of Tyr63 was estimated to 0.4 +/- 0.4 and 2.5 +/- 0.8, kcal mol-1, respectively. The result suggested that the direct contact, between the planar side-chain group of Tyr63 and the sugar residue at, subsite B is a major determinant of binding specificity toward a, electrostatically neutral substrate in the catalytic action of human, lysozyme.
+<StructureSection load='1tby' size='340' side='right'caption='[[1tby]], [[Resolution|resolution]] 1.77&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1tby]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TBY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TBY 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]] 1.77&#8491;</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=1tby FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tby OCA], [https://pdbe.org/1tby PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1tby RCSB], [https://www.ebi.ac.uk/pdbsum/1tby PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1tby ProSAT]</span></td></tr>
+</table>
+== Disease ==
+[https://www.uniprot.org/uniprot/LYSC_HUMAN LYSC_HUMAN] Defects in LYZ are a cause of amyloidosis type 8 (AMYL8) [MIM:[https://omim.org/entry/105200 105200]; also known as systemic non-neuropathic amyloidosis or Ostertag-type amyloidosis. AMYL8 is a hereditary generalized amyloidosis due to deposition of apolipoprotein A1, fibrinogen and lysozyme amyloids. Viscera are particularly affected. There is no involvement of the nervous system. Clinical features include renal amyloidosis resulting in nephrotic syndrome, arterial hypertension, hepatosplenomegaly, cholestasis, petechial skin rash.<ref>PMID:8464497</ref>
+== Function ==
+[https://www.uniprot.org/uniprot/LYSC_HUMAN LYSC_HUMAN] Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents.
+== 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/tb/1tby_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/main_output.php?pdb_ID=1tby ConSurf].
+<div style="clear:both"></div>
-==Disease==
+==See Also==
-Known diseases associated with this structure: Amyloidosis, renal OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=153450 153450]], Microphthalmia, syndromic 1 OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=309800 309800]]
+*[[Lysozyme 3D structures|Lysozyme 3D structures]]
+== References ==
-==About this Structure==
+<references/>
-TBY is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Active as [http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TBY OCA].
+__TOC__
+</StructureSection>
-==Reference==
-Dissection of the functional role of structural elements of tyrosine-63 in the catalytic action of human lysozyme., Muraki M, Harata K, Jigami Y, Biochemistry. 1992 Sep 29;31(38):9212-9. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=1390708 1390708]
 [[Category: Homo sapiens]]
-[[Category: Lysozyme]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[Category: Harata K]]
-[[Category: Harata, K.]]
+[[Category: Jigami Y]]
-[[Category: Jigami, Y.]]
+[[Category: Muraki M]]
-[[Category: Muraki, M.]]
-[[Category: hydrolase (o-glycosyl)]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri Feb 15 16:56:13 2008''