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- PDB-1nbr: Iron Responsive Element RNA Hairpin, NMR, 15 Structures -

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Basic information

Entry
Database: PDB / ID: 1nbr
TitleIron Responsive Element RNA Hairpin, NMR, 15 Structures
ComponentsRNA HAIRPIN
KeywordsRNA / Ribonucleic Acid / Hairpin / Translational Regulation
Function / homologyRNA / RNA (> 10)
Function and homology information
MethodSOLUTION NMR
AuthorsMcCallum, S.A. / Pardi, A.
Citation
Journal: J.Mol.Biol. / Year: 2003
Title: Refined Solution Structure of the Iron-responsive Element RNA Using Residual Dipolar Couplings
Authors: McCallum, S.A. / Pardi, A.
#1: Journal: J.Mol.Biol. / Year: 1997
Title: Structure and Dynamics of the Iron Responsive Element RNA: Implications for Binding of the RNA by Iron Regulatory Binding Proteins
Authors: Addess, K.J. / Basilion, J.P. / Klausner, R.D. / Rouault, T.A. / Pardi, A.
History
DepositionDec 3, 2002Deposition site: RCSB / Processing site: RCSB
Revision 1.0Mar 4, 2003Provider: repository / Type: Initial release
Revision 1.1Apr 28, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Feb 23, 2022Group: Data collection / Database references / Derived calculations
Category: database_2 / pdbx_nmr_software ...database_2 / pdbx_nmr_software / pdbx_struct_assembly / pdbx_struct_oper_list
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_nmr_software.name
Revision 1.4May 22, 2024Group: Data collection / Category: chem_comp_atom / chem_comp_bond

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: RNA HAIRPIN


Theoretical massNumber of molelcules
Total (without water)9,2931
Polymers9,2931
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)15 / 50structures with the lowest energy
RepresentativeModel #1lowest energy

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Components

#1: RNA chain RNA HAIRPIN


Mass: 9292.540 Da / Num. of mol.: 1 / Source method: obtained synthetically / Details: In Vitro Transcription using Synthetic RNA

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR

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Sample preparation

Sample conditionsIonic strength: 20 mM Na+ ions / pH: 6.5 / Pressure: ambient / Temperature: 298 K
Crystal grow
*PLUS
Method: other / Details: NMR

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NMR measurement

RadiationProtocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M
Radiation wavelengthRelative weight: 1
NMR spectrometer
TypeManufacturerModelField strength (MHz)Spectrometer-ID
Varian INOVAVarianINOVA5001
Varian INOVAVarianINOVA6002

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Processing

NMR software
NameVersionDeveloperClassification
X-PLOR3.851Brungerrefinement
Felix97MSIprocessing
NMR representativeSelection criteria: lowest energy
NMR ensembleConformer selection criteria: structures with the lowest energy
Conformers calculated total number: 50 / Conformers submitted total number: 15

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