1gqv: Difference between revisions

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-[[Image:1gqv.gif|left|200px]]<br />
-<applet load="1gqv" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1gqv, resolution 0.98&Aring;" />
-'''ATOMIC RESOLUTION (0.98A) STRUCTURE OF EOSINOPHIL-DERIVED NEUROTOXIN'''<br />
-==Overview==
+==Atomic Resolution (0.98A) Structure of Eosinophil-Derived Neurotoxin==
-Human eosinophil-derived neurotoxin (EDN) is a small, basic protein that, belongs to the ribonuclease A superfamily. EDN displays antiviral activity, and causes the neurotoxic Gordon phenomenon when injected into rabbits., Although EDN and ribonuclease A have appreciable structural similarity and, a conserved catalytic triad, their peripheral substrate-binding sites are, not conserved. The crystal structure of recombinant EDN (rEDN) has been, determined at 0.98 A resolution from data collected at a low temperature, (100 K). We have refined the crystallographic model of the structure using, anisotropic displacement parameters to a conventional R-factor of 0.116., This represents the highest resolution structure of rEDN determined to, date and is only the second ribonuclease structure to be determined at a, resolution greater than 1.0 A. The structure provides a detailed picture, of the conformational freedom at the various subsites of rEDN, and the, water structure accounts for more than 50% of the total solvent content of, the unit cell. This information will be crucial for the design of, tight-binding inhibitors to restrain the ribonucleolytic activity of rEDN.
+<StructureSection load='1gqv' size='340' side='right'caption='[[1gqv]], [[Resolution|resolution]] 0.98&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1gqv]] 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=1GQV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GQV 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]] 0.98&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</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=1gqv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gqv OCA], [https://pdbe.org/1gqv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gqv RCSB], [https://www.ebi.ac.uk/pdbsum/1gqv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gqv ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RNAS2_HUMAN RNAS2_HUMAN] This is a non-secretory ribonuclease. It is a pyrimidine specific nuclease with a slight preference for U. Cytotoxin and helminthotoxin. Selectively chemotactic for dendritic cells. Possesses a wide variety of biological activities.<ref>PMID:3458170</ref> <ref>PMID:12578357</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/gq/1gqv_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=1gqv ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Human eosinophil-derived neurotoxin (EDN) is a small, basic protein that belongs to the ribonuclease A superfamily. EDN displays antiviral activity and causes the neurotoxic Gordon phenomenon when injected into rabbits. Although EDN and ribonuclease A have appreciable structural similarity and a conserved catalytic triad, their peripheral substrate-binding sites are not conserved. The crystal structure of recombinant EDN (rEDN) has been determined at 0.98 A resolution from data collected at a low temperature (100 K). We have refined the crystallographic model of the structure using anisotropic displacement parameters to a conventional R-factor of 0.116. This represents the highest resolution structure of rEDN determined to date and is only the second ribonuclease structure to be determined at a resolution greater than 1.0 A. The structure provides a detailed picture of the conformational freedom at the various subsites of rEDN, and the water structure accounts for more than 50% of the total solvent content of the unit cell. This information will be crucial for the design of tight-binding inhibitors to restrain the ribonucleolytic activity of rEDN.
-==Disease==
+Atomic resolution (0.98 A) structure of eosinophil-derived neurotoxin.,Swaminathan GJ, Holloway DE, Veluraja K, Acharya KR Biochemistry. 2002 Mar 12;41(10):3341-52. PMID:11876642<ref>PMID:11876642</ref>
-Known diseases associated with this structure: Central hypoventilation syndrome, congenital OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=131242 131242]], Hirschsprung disease OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=131242 131242]], Shah-Waardenburg syndrome OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=131242 131242]]
-==About this Structure==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-GQV is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with ACT as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Pancreatic_ribonuclease Pancreatic ribonuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.27.5 3.1.27.5] Structure known Active Site: AC1. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1GQV OCA].
+</div>
+<div class="pdbe-citations 1gqv" style="background-color:#fffaf0;"></div>
-==Reference==
+== References ==
-Atomic resolution (0.98 A) structure of eosinophil-derived neurotoxin., Swaminathan GJ, Holloway DE, Veluraja K, Acharya KR, Biochemistry. 2002 Mar 12;41(10):3341-52. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11876642 11876642]
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Homo sapiens]]
-[[Category: Pancreatic ribonuclease]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[Category: Acharya KR]]
-[[Category: Acharya, K.R.]]
+[[Category: Holloway DE]]
-[[Category: Holloway, D.E.]]
+[[Category: Swaminathan GJ]]
-[[Category: Swaminathan, G.J.]]
+[[Category: Veluraja K]]
-[[Category: Veluraja, K.]]
-[[Category: ACT]]
-[[Category: ribonuclease]]
-[[Category: rnase us]]
-[[Category: rnase-2]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 12 17:08:06 2007''