1f7i: Difference between revisions

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-{{Seed}}
-[[Image:1f7i.png|left|200px]]
-<!--
+==SOLUTION STRUCTURE OF THE RNASE P RNA (M1 RNA) P4 STEM C70U MUTANT OLIGORIBONUCLEOTIDE COMPLEXED WITH COBALT (III) HEXAMINE ,NMR, ENSEMBLE OF 12 STRUCTURES==
-The line below this paragraph, containing "STRUCTURE_1f7i", creates the "Structure Box" on the page.
+<StructureSection load='1f7i' size='340' side='right'caption='[[1f7i]]' 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'>[[1f7i]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F7I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1F7I 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">Solution NMR</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>
-{{STRUCTURE_1f7i|  PDB=1f7i  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1f7i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1f7i OCA], [https://pdbe.org/1f7i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1f7i RCSB], [https://www.ebi.ac.uk/pdbsum/1f7i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1f7i ProSAT]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+We determined the solution structure of two 27-nt RNA hairpins and their complexes with cobalt(III)-hexammine (Co(NH3)3+(6)) by NMR spectroscopy. The RNA hairpins used in this study are the P4 region from Escherichia coli RNase P RNA and a C-to-U mutant that confers altered divalent metal-ion specificity (Ca2+ replaces Mg2+) for catalytic activity of this ribozyme. Co(NH3)3+(6) is a useful spectroscopic probe for Mg(H2O)2+(6)-binding sites because both complexes have octahedral symmetry and have similar radii. The thermodynamics of binding to both RNA hairpins was studied using chemical shift changes upon titration with Mg2+, Ca2+, and Co(NH3)3+(6). We found that the equilibrium binding constants for each of the metal ions was essentially unchanged when the P4 model RNA hairpin was mutated, although the NMR structures show that the RNA hairpins adopt different conformations. In the C-to-U mutant a C.G base pair is replaced by U.G, and the conserved bulged uridine in the P4 wild-type stem shifts in the 3' direction by 1 nt. Intermolecular NOE cross-peaks between Co(NH3)3+(6) and RNA protons were used to locate the site of Co(NH3)3+(6) binding to both RNA hairpins. The metal ion binds in the major groove near a bulge loop, but is shifted 5' by more than 1 bp in the mutant. The change of the metal-ion binding site provides a possible explanation for changes in catalytic activity of the mutant RNase P in the presence of Ca2+.
-===SOLUTION STRUCTURE OF THE RNASE P RNA (M1 RNA) P4 STEM C70U MUTANT OLIGORIBONUCLEOTIDE COMPLEXED WITH COBALT (III) HEXAMINE ,NMR, ENSEMBLE OF 12 STRUCTURES===
+Solution structure and metal-ion binding of the P4 element from bacterial RNase P RNA.,Schmitz M, Tinoco I Jr RNA. 2000 Sep;6(9):1212-25. PMID:10999599<ref>PMID:10999599</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1f7i" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_10999599}}, adds the Publication Abstract to the page
+*[[Ribozyme 3D structures|Ribozyme 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 10999599 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_10999599}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1F7I OCA].
+[[Category: Schmitz M]]
+[[Category: Tinoco Jr I]]
-==Reference==
-Solution structure and metal-ion binding of the P4 element from bacterial RNase P RNA., Schmitz M, Tinoco I Jr, RNA. 2000 Sep;6(9):1212-25. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10999599 10999599]
-[[Category: Jr., I Tinoco.]]
-[[Category: Schmitz, M.]]
-[[Category: C70u mutant]]
-[[Category: Metal binding site]]
-[[Category: Metal complex]]
-[[Category: P4 stem]]
-[[Category: Ribonuclease p]]
-[[Category: Ribozyme]]
-[[Category: Transfer rna processing]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul  1 02:49:25 2008''