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4u3r

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Revision as of 08:00, 22 March 2023

Octameric RNA duplex co-crystallized with cobalt(II)chloride

Structural highlights

4u3r 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.
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/4u3r"

@@ Line 3: / Line 3: @@
 <StructureSection load='4u3r' size='340' side='right'caption='[[4u3r]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4u3r]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U3R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U3R FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4u3r]] 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=4U3R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U3R FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4u3l|4u3l]], [[4u3o|4u3o]], [[4u3p|4u3p]]</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=4u3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u3r OCA], [https://pdbe.org/4u3r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u3r RCSB], [https://www.ebi.ac.uk/pdbsum/4u3r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u3r ProSAT]</span></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=4u3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u3r OCA], [http://pdbe.org/4u3r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4u3r RCSB], [http://www.ebi.ac.uk/pdbsum/4u3r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4u3r ProSAT]</span></td></tr>
 </table>
 <div style="background-color:#fffaf0;">
@@ Line 22: / Line 21: @@
 </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]]

4u3r

From Proteopedia

Revision as of 08:00, 22 March 2023

Octameric RNA duplex co-crystallized with cobalt(II)chloride

Structural highlights

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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