BMRB Entry 16654

Title:
Solution structure of the human mitochondrial tRNAMet ASL containing the 5-formylcytidine modification in position 34
Deposition date:
2009-12-23
Original release date:
2011-06-01
Authors:
Bilbille, Yann; Agris, Paul
Citation:

Citation: Bilbille, Yann; Gustilo, Estella; Harris, Kimberly; Jones, Christie; Lusic, Hrvoje; Kaiser, Robert; Delaney, Michael; Spremulli, Linda; Deiters, Alexander; Agris, Paul. "The human mitochondrial tRNAMet: structure/function relationship of a unique modification in the decoding of unconventional codons."  J. Mol. Biol. 406, 257-274 (2011).
PubMed: 21168417

Assembly members:

Assembly members:
RNA_(5'-R(*(PSU)P*CP*GP*GP*GP*CP*CP*(N)P*AP*UP*AP*CP*CP*CP*CP*GP*A)-3'), polymer, 17 residues, 5268.217 Da.

Natural source:

Natural source:   Common Name: Human   Taxonomy ID: 9606   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Homo sapiens

Experimental source:

Experimental source:   Production method: chemical synthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
RNA_(5'-R(*(PSU)P*CP*GP*GP*GP*CP*CP*(N)P*AP*UP*AP*CP*CP*CP*CP*GP*A)-3'): XCGGGCCXAUACCCCGA

Data sets:
Data typeCount
1H chemical shifts130

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1RNA (5'-R(*(PSU)P*CP*GP*GP*GP*CP*CP*(N)P*AP*UP*AP*CP*CP*CP*CP*GP*A)-3')1

Entities:

Entity 1, RNA (5'-R(*(PSU)P*CP*GP*GP*GP*CP*CP*(N)P*AP*UP*AP*CP*CP*CP*CP*GP*A)-3') 17 residues - 5268.217 Da.

1   PSUCGGGCCNAU
2   ACCCCGA

Samples:

sample_1: RNA (5'-R(*(PSU)P*CP*GP*GP*GP*CP*CP*(N)P*AP*UP*AP*CP*CP*CP*CP*GP*A)-3') 1.0 mM; phosphate buffer 20 mM

sample_2: RNA (5'-R(*(PSU)P*CP*GP*GP*GP*CP*CP*(N)P*AP*UP*AP*CP*CP*CP*CP*GP*A)-3') 1 mM; phosphate buffer 20 mM

sample_conditions_1: ionic strength: 20 mM; pH: 6.8; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-1H NOESYsample_1isotropicsample_conditions_1
2D 1H-1H NOESYsample_2isotropicsample_conditions_1
2D DQF-COSYsample_2isotropicsample_conditions_1
2D 1H-1H COSYsample_1isotropicsample_conditions_1
2D 1H-1H TOCSYsample_1isotropicsample_conditions_1
2D 1H-13C HSQCsample_2isotropicsample_conditions_1
2D 1H-31P HETCORsample_2isotropicsample_conditions_1

Software:

xwinnmr, Bruker Biospin - collection

TOPSPIN, Bruker Biospin - collection

NMRDraw, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - data analysis

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

SPARKY, Goddard - chemical shift assignment, data analysis, peak picking

CNS v1.21, Brunger, Adams, Clore, Gros, Nilges and Read - structure solution

Molmol, Koradi, Billeter and Wuthrich - data analysis

NMR spectrometers:

  • Varian INOVA 600 MHz
  • Bruker Avance 500 MHz