1j7z: Difference between revisions

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-[[Image:1j7z.gif|left|200px]]<br /><applet load="1j7z" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1j7z, resolution 2.25&Aring;" />
-'''Osmolyte Stabilization of Ribonuclease'''<br />
-==Overview==
+==Osmolyte Stabilization of Ribonuclease==
-Osmolytes stabilize proteins to thermal and chemical denaturation. We have, studied the effects of the osmolytes sarcosine, betaine, trimethylamine-N-oxide, and taurine on the structure and stability of the, protein.peptide complex RNase S using x-ray crystallography and titration, calorimetry, respectively. The largest degree of stabilization is achieved, with 6 m sarcosine, which increases the denaturation temperatures of RNase, S and S pro by 24.6 and 17.4 degrees C, respectively, at pH 5 and protects, both proteins against tryptic cleavage. Four crystal structures of RNase S, in the presence of different osmolytes do not offer any evidence for, osmolyte binding to the folded state of the protein or any perturbation in, the water structure surrounding the protein. The degree of stabilization, in 6 m sarcosine increases with temperature, ranging from -0.52 kcal, mol(-1) at 20 degrees C to -5.4 kcal mol(-1) at 60 degrees C. The data, support the thesis that osmolytes that stabilize proteins, do so by, perturbing unfolded states, which change conformation to a compact, folding competent state in the presence of osmolyte. The increased, stabilization thus results from a decrease in conformational entropy of, the unfolded state.
+<StructureSection load='1j7z' size='340' side='right'caption='[[1j7z]], [[Resolution|resolution]] 2.25&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1j7z]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J7Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1J7Z 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=NH2:AMINO+GROUP'>NH2</scene>, <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=1j7z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j7z OCA], [https://pdbe.org/1j7z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1j7z RCSB], [https://www.ebi.ac.uk/pdbsum/1j7z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1j7z ProSAT]</span></td></tr>
+</table>
+== 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/j7/1j7z_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=1j7z ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Osmolytes stabilize proteins to thermal and chemical denaturation. We have studied the effects of the osmolytes sarcosine, betaine, trimethylamine-N-oxide, and taurine on the structure and stability of the protein.peptide complex RNase S using x-ray crystallography and titration calorimetry, respectively. The largest degree of stabilization is achieved with 6 m sarcosine, which increases the denaturation temperatures of RNase S and S pro by 24.6 and 17.4 degrees C, respectively, at pH 5 and protects both proteins against tryptic cleavage. Four crystal structures of RNase S in the presence of different osmolytes do not offer any evidence for osmolyte binding to the folded state of the protein or any perturbation in the water structure surrounding the protein. The degree of stabilization in 6 m sarcosine increases with temperature, ranging from -0.52 kcal mol(-1) at 20 degrees C to -5.4 kcal mol(-1) at 60 degrees C. The data support the thesis that osmolytes that stabilize proteins, do so by perturbing unfolded states, which change conformation to a compact, folding competent state in the presence of osmolyte. The increased stabilization thus results from a decrease in conformational entropy of the unfolded state.
-==About this Structure==
+Osmolytes stabilize ribonuclease S by stabilizing its fragments S protein and S peptide to compact folding-competent states.,Ratnaparkhi GS, Varadarajan R J Biol Chem. 2001 Aug 3;276(31):28789-98. Epub 2001 May 23. PMID:11373282<ref>PMID:11373282</ref>
-J7Z is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus] with SO4 and NH2 as [http://en.wikipedia.org/wiki/ligands ligands]. 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] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1J7Z OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-Osmolytes stabilize ribonuclease S by stabilizing its fragments S protein and S peptide to compact folding-competent states., Ratnaparkhi GS, Varadarajan R, J Biol Chem. 2001 Aug 3;276(31):28789-98. Epub 2001 May 23. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11373282 11373282]
+</div>
+<div class="pdbe-citations 1j7z" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Ribonuclease 3D structures|Ribonuclease 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Bos taurus]]
-[[Category: Pancreatic ribonuclease]]
+[[Category: Large Structures]]
-[[Category: Protein complex]]
+[[Category: Ratnaparkhi GS]]
-[[Category: Ratnaparkhi, G.S.]]
+[[Category: Varadarajan R]]
-[[Category: Varadarajan, R.]]
-[[Category: NH2]]
-[[Category: SO4]]
-[[Category: betaine]]
-[[Category: osmolyte soaking]]
-[[Category: sarcosine]]
-[[Category: taurine]]
-[[Category: trimethylamine-n-oxide]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 18:00:04 2007''