1AJF

SOLUTION STRUCTURE OF THE P5B STEM LOOP FROM A GROUP I INTRON COMPLEXED WITH COBALT (III) HEXAMMINE, NMR, MINIMIZED AVERAGE STRUCTURE

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 32 
  • Conformers Submitted: 1 
  • Selection Criteria: NOE ENERGY (LEAST RESTRAINT VIOLATIONS), TOTAL ENERGY 

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This is version 1.3 of the entry. See complete history. 


Literature

Solution structure of a metal-binding site in the major groove of RNA complexed with cobalt (III) hexammine.

Kieft, J.S., Tinoco Jr., I.

(1997) Structure 5: 713-721

  • DOI: 10.1016/s0969-2126(97)00225-6
  • Primary Citation of Related Structures:  
    1AJF

  • PubMed Abstract: 

    • Solvated metal ions are critical for the proper folding and function of RNA. Despite the importance of these ions, the details of specific metal ion-RNA interactions are poorly understood. The crystal structure of a group I intron ribozyme domain characterized several metal-binding sites in the RNA with osmium (III) hexammine bound in the major groove ...

    Solvated metal ions are critical for the proper folding and function of RNA. Despite the importance of these ions, the details of specific metal ion-RNA interactions are poorly understood. The crystal structure of a group I intron ribozyme domain characterized several metal-binding sites in the RNA with osmium (III) hexammine bound in the major groove. A corresponding method for locating and characterizing metal-binding sites of RNA in solution is of obvious interest. NMR should be ideal for localizing metal hexammine ions bound to the RNA because of the large concentration of protons around the metal center.

    Organizational Affiliation: 

    Department of Chemistry, University of California, Berkeley, CA 94720-1460, USA.



Macromolecules

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Entity ID: 1
MoleculeChainsLengthOrganismImage
RNA (5'-R(*GP*AP*CP*AP*GP*GP*GP*GP*AP*AP*AP*CP*UP*UP*UP*GP*UP*C)-3')A 18synthetic construct
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NCO
Query on NCO
Download Ideal Coordinates CCD File 
B [auth A]COBALT HEXAMMINE(III)
Co H18 N6
DYLMFCCYOUSRTK-FGTKAUEHAT		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 32 
  • Conformers Submitted: 1 
  • Selection Criteria: NOE ENERGY (LEAST RESTRAINT VIOLATIONS), TOTAL ENERGY 
  • OLDERADO: 1AJF Olderado

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1997-07-07
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2021-10-27
    Changes: Data collection, Database references, Derived calculations, Other, Source and taxonomy