1r5c: Difference between revisions

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-{{Seed}}
-[[Image:1r5c.png|left|200px]]
-<!--
+==X-ray structure of the complex of Bovine seminal ribonuclease swapping dimer with d(CpA)==
-The line below this paragraph, containing "STRUCTURE_1r5c", creates the "Structure Box" on the page.
+<StructureSection load='1r5c' size='340' side='right'caption='[[1r5c]], [[Resolution|resolution]] 2.10&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'>[[1r5c]] 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=1R5C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1R5C 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]] 2.1&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CPA:2-DEOXYCYTIDINE-2-DEOXYADENOSINE-3,5-MONOPHOSPHATE'>CPA</scene></td></tr>
-{{STRUCTURE_1r5c|  PDB=1r5c  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1r5c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r5c OCA], [https://pdbe.org/1r5c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1r5c RCSB], [https://www.ebi.ac.uk/pdbsum/1r5c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1r5c ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RNS_BOVIN RNS_BOVIN] This enzyme hydrolyzes both single- and double-stranded RNA.
+== 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/r5/1r5c_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=1r5c ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Bovine seminal ribonuclease (BS-RNase) is a unique member of the pancreatic-like ribonuclease superfamily. This enzyme exists as two conformational isomers with distinctive biological properties. The structure of the major isomer is characterized by the swapping of the N-terminal segment (MxM BS-RNase). In this article, the crystal structures of the ligand-free MxM BS-RNase and its complex with 2'-deoxycitidylyl(3',5')-2'-deoxyadenosine derived from isomorphous crystals have been refined. Interestingly, the comparison between this novel ligand-free form and the previously published sulfate-bound structure reveals significant differences. In particular, the ligand-free MxM BS-RNase is closer to the structure of MxM BS-RNase productive complexes than to the sulfate-bound form. These results reveal that MxM BS-RNase presents a remarkable flexibility, despite the structural constraints of the interchain disulfide bridges and the swapping of the N-terminal helices. These findings have important implications to the ligand binding mechanism of MxM BS-RNase. Indeed, a population shift rather than a substrate-induced conformational transition may occur in the MxM BS-RNase ligand binding process.
-===X-ray structure of the complex of Bovine seminal ribonuclease swapping dimer with d(CpA)===
+Population shift vs induced fit: the case of bovine seminal ribonuclease swapping dimer.,Merlino A, Vitagliano L, Sica F, Zagari A, Mazzarella L Biopolymers. 2004 Apr 15;73(6):689-95. PMID:15048772<ref>PMID:15048772</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1r5c" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_15048772}}, adds the Publication Abstract to the page
+*[[Ribonuclease 3D structures|Ribonuclease 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 15048772 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_15048772}}
+__TOC__
+</StructureSection>
-==About this Structure==
-R5C is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R5C OCA].
-==Reference==
-<ref group="xtra">PMID:15048772</ref><references group="xtra"/>
 [[Category: Bos taurus]]
-[[Category: Pancreatic ribonuclease]]
+[[Category: Large Structures]]
-[[Category: Mazzarella, L.]]
+[[Category: Mazzarella L]]
-[[Category: Merlino, A.]]
+[[Category: Merlino A]]
-[[Category: Sica, F.]]
+[[Category: Sica F]]
-[[Category: Vitagliano, L.]]
+[[Category: Vitagliano L]]
-[[Category: Zagari, A.]]
+[[Category: Zagari A]]
-[[Category: 3d domain swapping]]
-[[Category: Ligand binding]]
-[[Category: Population shift]]
-[[Category: Protein dynamic]]
-[[Category: Protein structure-function]]
-[[Category: Ribonuclease]]
-[[Category: X-ray diffraction]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 15:27:34 2009''