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- PDB-1pbm: STRUCTURE OF RIBONUCLEIC ACID, NMR, 1 STRUCTURE -

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Basic information

Entry
Database: PDB / ID: 1pbm
TitleSTRUCTURE OF RIBONUCLEIC ACID, NMR, 1 STRUCTURE
ComponentsRNA (5'-R(*CP*GP*CP*GP*CP*G)-3')
KeywordsRNA / RIBONUCLEIC ACID / RNA DUPLEX
Function / homologyRNA
Function and homology information
MethodSOLUTION NMR / IRMA, RMD
AuthorsPopenda, M. / Biala, E. / Milecki, J. / Adamiak, R.W.
CitationJournal: Nucleic Acids Res. / Year: 1997
Title: Solution structure of RNA duplexes containing alternating CG base pairs: NMR study of r(CGCGCG)2 and 2'-O-Me(CGCGCG)2 under low salt conditions.
Authors: Popenda, M. / Biala, E. / Milecki, J. / Adamiak, R.W.
History
DepositionAug 5, 1996Processing site: BNL
Revision 1.0Jul 7, 1997Provider: repository / Type: Initial release
Revision 1.1Mar 24, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Feb 23, 2022Group: Data collection / Database references ...Data collection / Database references / Derived calculations / Other
Category: database_2 / pdbx_database_status ...database_2 / pdbx_database_status / pdbx_nmr_software / pdbx_struct_assembly / pdbx_struct_oper_list
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_status.process_site / _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 (5'-R(*CP*GP*CP*GP*CP*G)-3')
B: RNA (5'-R(*CP*GP*CP*GP*CP*G)-3')


Theoretical massNumber of molelcules
Total (without water)3,8122
Polymers3,8122
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)1 / 106R 1/6 VALUE
Representative

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Components

#1: RNA chain RNA (5'-R(*CP*GP*CP*GP*CP*G)-3')


Mass: 1906.205 Da / Num. of mol.: 2 / Source method: obtained synthetically

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR

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Sample preparation

Sample conditionspH: 6.5 / Temperature: 300 K
Crystal grow
*PLUS
Method: other / Details: NMR

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NMR measurement

NMR spectrometerType: Varian UNITYPLUS / Manufacturer: Varian / Model: UNITYPLUS / Field strength: 500 MHz

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Processing

NMR software
NameDeveloperClassification
DiscoverBIOSYMrefinement
Felixstructure solution
NMRCHITECTstructure solution
Discoverstructure solution
RefinementMethod: IRMA, RMD / Software ordinal: 1
NMR ensembleConformer selection criteria: R 1/6 VALUE / Conformers calculated total number: 106 / Conformers submitted total number: 1

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