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- PDB-5a17: The structure of the SOLE element of oskar mRNA -

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Basic information

Entry
Database: PDB / ID: 5a17
TitleThe structure of the SOLE element of oskar mRNA
ComponentsOSKAR MRNA
KeywordsRNA / SOLE ELEMENT / OSKAR
Function / homologyRNA / RNA (> 10)
Function and homology information
Biological speciesDROSOPHILA MELANOGASTER (fruit fly)
MethodSOLUTION NMR / ARIA
AuthorsSimon, B. / Masiewicz, P. / Ephrussi, A. / Carlomagno, T.
CitationJournal: RNA / Year: 2015
Title: The Structure of the Sole Element of Oskar Mrna.
Authors: Simon, B. / Masiewicz, P. / Ephrussi, A. / Carlomagno, T.
History
DepositionApr 28, 2015Deposition site: PDBE / Processing site: PDBE
Revision 1.0May 6, 2015Provider: repository / Type: Initial release
Revision 1.1Jul 1, 2015Group: Database references
Revision 1.2Jul 29, 2015Group: Database references
Revision 1.3Apr 27, 2016Group: Atomic model / Other
Revision 2.0Jan 24, 2018Group: Atomic model / Data collection ...Atomic model / Data collection / Database references / Source and taxonomy
Category: atom_site / citation ...atom_site / citation / entity_src_gen / pdbx_nmr_spectrometer
Item: _atom_site.B_iso_or_equiv / _atom_site.Cartn_x ..._atom_site.B_iso_or_equiv / _atom_site.Cartn_x / _atom_site.Cartn_y / _atom_site.Cartn_z / _atom_site.auth_atom_id / _atom_site.label_atom_id / _atom_site.type_symbol / _citation.page_last / _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id / _pdbx_nmr_spectrometer.manufacturer / _pdbx_nmr_spectrometer.model
Revision 2.1Jun 14, 2023Group: Data collection / Database references / Other
Category: database_2 / pdbx_database_status ...database_2 / pdbx_database_status / pdbx_nmr_software / pdbx_nmr_spectrometer
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_status.status_code_cs / _pdbx_database_status.status_code_mr / _pdbx_database_status.status_code_nmr_data / _pdbx_nmr_software.name / _pdbx_nmr_spectrometer.model
Revision 2.2Jun 19, 2024Group: Data collection / Database references / Category: chem_comp_atom / chem_comp_bond / database_2 / Item: _database_2.pdbx_DOI

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Assembly

Deposited unit
A: OSKAR MRNA


Theoretical massNumber of molelcules
Total (without water)10,3121
Polymers10,3121
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author&software
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
MethodPQS
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)10 / 100LEAST RESTRAINT VIOLATION
RepresentativeModel #7

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Components

#1: RNA chain OSKAR MRNA


Mass: 10312.204 Da / Num. of mol.: 1 / Fragment: SOLE ELEMENT
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) DROSOPHILA MELANOGASTER (fruit fly) / Production host: IN VITRO TRANSCRIPTION (others)

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
111HBCNB/HSCNB
221(H)CCH-COSY- TOCSY
3313D EDITED NOESY
4413D 13C EDITED NOESY
5512D NOESY
6612D HNN-COSY
NMR detailsText: NONE

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Sample preparation

DetailsContents: 90% H2O/10% D2O
Sample conditions
Conditions-IDpHTemperature (K)
16.4308.0 K
26.4308.0 K

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NMR measurement

NMR spectrometer
TypeManufacturerModelField strength (MHz)Spectrometer-ID
Bruker AVANCEBrukerAVANCE6001
Bruker AVANCEBrukerAVANCE8002

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Processing

NMR software
NameVersionDeveloperClassification
CNS1.1BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- KUNSTLEVE, JIANG,KUSZEWSKI,NILGES,PANNU,READ, RICE,SIMONSON, WARRENrefinement
Felixstructure solution
RefinementMethod: ARIA / Software ordinal: 1 / Details: REFINEMENT IN WATER
NMR ensembleConformer selection criteria: LEAST RESTRAINT VIOLATION / Conformers calculated total number: 100 / Conformers submitted total number: 10

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