BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
Member of WWPDB

BMRB Entry 7230

Title: The NMR Structure of an Internal Loop from 23S Ribosomal RNA Differs from its Structure in Crystals of the 50S Ribosomal Subunit   PubMed: 17002278

Deposition date: 2006-07-14 Original release date: 2006-10-19

Authors: Shankar, N.

Citation: Shankar, Neelaabh; Kennedy, S.; Chen, G.; Krugh, T.; Turner, D.. "The NMR Structure of an Internal Loop from 23S Ribosomal RNA Differs from Its Structure in Crystals of 50S Ribosomal Subunits"  Biochemistry 45, 11776-11789 (2006).

Assembly members:
5'-R(*GP*GP*CP*UP*AP*AP*GP*AP*C)-3', polymer, 9 residues, Formula weight is not available
5'-R(*GP*UP*CP*GP*AP*AP*GP*CP*C)-3', polymer, 9 residues, Formula weight is not available

Natural source:   Common Name: Deinococcus radiodurans   Taxonomy ID: 1299   Superkingdom: Eubacteria   Kingdom: not available   Genus/species: Deinococcus radiodurans

Experimental source:   Production method: chemical synthesis

Entity Sequences (FASTA):
5'-R(*GP*GP*CP*UP*AP*AP*GP*AP*C)-3': GGCUAAGAC
5'-R(*GP*UP*CP*GP*AP*AP*GP*CP*C)-3': GUCGAAGCC

Data sets:
Data typeCount
1H chemical shifts102

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
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Assembly:

Entity Assembly IDEntity NameEntity ID
15'-R(*GP*GP*CP*UP*AP*AP*GP*AP*C)-3'1
25'-R(*GP*UP*CP*GP*AP*AP*GP*CP*C)-3'2

Entities:

Entity 1, 5'-R(*GP*GP*CP*UP*AP*AP*GP*AP*C)-3' 9 residues - Formula weight is not available

1   GGCUAAGAC

Entity 2, 5'-R(*GP*UP*CP*GP*AP*AP*GP*CP*C)-3' 9 residues - Formula weight is not available

1   GUCGAAGCC

Samples:

sample_1: 5'-R(*GP*GP*CP*UP*AP*AP*GP*AP*C)-3' 2 mM; 5'-R(*GP*UP*CP*GP*AP*AP*GP*CP*C)-3' 2 mM; NaCl 80 mM; SODIUM PHOSPHATE 10 mM; Na2EDTA 0.5 mM; H2O 90%; D2O 10%

sample_2: 5'-R(*GP*GP*CP*UP*AP*AP*GP*AP*C)-3' 2 mM; 5'-R(*GP*UP*CP*GP*AP*AP*GP*CP*C)-3' 2 mM; NaCl 80 mM; SODIUM PHOSPHATE 10 mM; Na2EDTA 0.5 mM; D2O 100%

sample_cond_1: pH: 6.5; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
unknownnot availableisotropicsample_cond_1

Software:

SPARKY v3.110 - data analysis

NMRDraw v2.3 - processing

DISCOVER v98 - refinement

NMR spectrometers:

  • Varian INOVA 600 MHz
  • Varian INOVA 500 MHz