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- PDB-1b36: SOLUTION STRUCTURE OF THE HAIRPIN RIBOZYME LOOP B DOMAIN RNA, NMR... -

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Entry
Database: PDB / ID: 1b36
TitleSOLUTION STRUCTURE OF THE HAIRPIN RIBOZYME LOOP B DOMAIN RNA, NMR, 10 STRUCTURES
ComponentsRNA (RNA LOOP B)
KeywordsRNA / RIBONUCLEIC ACID / TETRALOOP RECEPTOR / GROUP I INTRON / GROUP II INTRON
Function / homologyRNA / RNA (> 10)
Function and homology information
Biological speciessynthetic construct (others)
MethodSOLUTION NMR / distance geometry
AuthorsButcher, S.E. / Dieckmann, T. / Feigon, J.
CitationJournal: Nat.Struct.Biol. / Year: 1999
Title: Solution structure of the loop B domain from the hairpin ribozyme.
Authors: Butcher, S.E. / Allain, F.H. / Feigon, J.
History
DepositionDec 17, 1998Deposition site: BNL / Processing site: RCSB
Revision 1.0Dec 23, 1998Provider: repository / Type: Initial release
Revision 1.1Apr 27, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Feb 16, 2022Group: Database references / Derived calculations
Category: database_2 / pdbx_struct_assembly / pdbx_struct_oper_list
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession
Revision 1.4Dec 27, 2023Group: 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 (RNA LOOP B)


Theoretical massNumber of molelcules
Total (without water)12,2151
Polymers12,2151
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)10 / 50LOWEST ENERGY STRUCTURES
Representative

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Components

#1: RNA chain RNA (RNA LOOP B) / LOOP B


Mass: 12215.317 Da / Num. of mol.: 1 / Fragment: DOMAIN B
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) synthetic construct (others) / Production host: IN VITRO

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR detailsText: IONIC_STRENGTH: 0.05 M PRESSURE: 1 ATM SOLVENT

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Sample preparation

Sample conditionsIonic strength: 0.05M / pH: 6 / Temperature: 303 K
Crystal grow
*PLUS
Method: other / Details: NMR

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NMR measurement

NMR spectrometerType: Bruker DRX / Manufacturer: Bruker / Model: DRX / Field strength: 750 MHz

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Processing

NMR software
NameVersionDeveloperClassification
X-PLOR3.1BRUNGERrefinement
X-PLOR3structure solution
RefinementMethod: distance geometry / Software ordinal: 1
NMR ensembleConformer selection criteria: LOWEST ENERGY STRUCTURES / Conformers calculated total number: 50 / Conformers submitted total number: 10

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