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4u47

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Octameric RNA duplex soaked in terbium(III)chloride

Structural highlights

4u47 is a 2 chain structure with sequence from Synthetic construct. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.952Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Publication Abstract from PubMed

Due to the polyanionic nature of RNA, the principles of charge neutralization and electrostatic condensation require that cations help to overcome the repulsive forces in order for RNA to adopt a three-dimensional structure. A precise structural knowledge of RNA-metal ion interactions is crucial to understand the mechanism of metal ions in the catalytic or regulatory activity of RNA. We solved the crystal structure of an octameric RNA duplex in the presence of the di- and trivalent metal ions Ca(2+), Mn(2+), Co(2+), Cu(2+), Sr(2+), and Tb(3+). The detailed investigation reveals a unique innersphere interaction to uracil and extends the knowledge of the influence of metal ions for conformational changes in RNA structure. Furthermore, we could demonstrate that an accurate localization of the metal ions in the X-ray structures require the consideration of several crystallographic and geometrical parameters as well as the anomalous difference map.

The X-ray Structures of Six Octameric RNA Duplexes in the Presence of Different Di- and Trivalent Cations.,Schaffer MF, Peng G, Spingler B, Schnabl J, Wang M, Olieric V, Sigel RK Int J Mol Sci. 2016 Jun 27;17(7). pii: E988. doi: 10.3390/ijms17070988. PMID:27355942^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Schaffer MF, Peng G, Spingler B, Schnabl J, Wang M, Olieric V, Sigel RK. The X-ray Structures of Six Octameric RNA Duplexes in the Presence of Different Di- and Trivalent Cations. Int J Mol Sci. 2016 Jun 27;17(7). pii: E988. doi: 10.3390/ijms17070988. PMID:27355942 doi:http://dx.doi.org/10.3390/ijms17070988

1 Structural highlights
2 Publication Abstract from PubMed
3 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4u47"

@@ Line 3: / Line 3: @@
 <StructureSection load='4u47' size='340' side='right'caption='[[4u47]], [[Resolution|resolution]] 1.95&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4u47]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U47 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U47 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4u47]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U47 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U47 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TB:TERBIUM(III)+ION'>TB</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.952&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4u3l|4u3l]], [[4u3r|4u3r]], [[4u3o|4u3o]], [[4u3p|4u3p]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TB:TERBIUM(III)+ION'>TB</scene></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4u47 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u47 OCA], [http://pdbe.org/4u47 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4u47 RCSB], [http://www.ebi.ac.uk/pdbsum/4u47 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4u47 ProSAT]</span></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=4u47 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u47 OCA], [https://pdbe.org/4u47 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u47 RCSB], [https://www.ebi.ac.uk/pdbsum/4u47 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u47 ProSAT]</span></td></tr>
 </table>
 <div style="background-color:#fffaf0;">
@@ Line 22: / Line 22: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Olieric, V]]
+[[Category: Synthetic construct]]
-[[Category: Peng, G]]
+[[Category: Olieric V]]
-[[Category: Schaffer, M F]]
+[[Category: Peng G]]
-[[Category: Schnabl, J]]
+[[Category: Schaffer MF]]
-[[Category: Sigel, R K.O]]
+[[Category: Schnabl J]]
-[[Category: Spingler, B]]
+[[Category: Sigel RKO]]
-[[Category: Di- and trivalent metal ion]]
+[[Category: Spingler B]]
-[[Category: Duplex]]
-[[Category: Rna]]

4u47

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Current revision

Octameric RNA duplex soaked in terbium(III)chloride

Structural highlights

Publication Abstract from PubMed

References

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