BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 25101

Title: Solution NMR structure of tRNApro:MLV Nucleocapsid Protein (1:1) Complex   PubMed: 25209668

Authors: D'Souza, Victoria; Yildiz, Zehra

Citation: Miller, Sarah; Yildiz, F.; Lo, Jennifer; Wang, Bo; D'Souza, Victoria. "A structure-based mechanism for tRNA and retroviral RNA remodelling during primer annealing"  Nature 515, 591-595 (2014).

Assembly members:
MLV_Nucleocapsid, polymer, 55 residues, 6264.138 Da.
tRNApro, polymer, 71 residues, Formula weight is not available
ZINC ION, non-polymer, 65.409 Da.

Natural source:   Common Name: Murine Leukemia Virus   Taxonomy ID: 11786   Superkingdom: Viruses   Kingdom: not available   Genus/species: Gammaretrovirus not available

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli

Entity Sequences (FASTA):
MLV_Nucleocapsid: ATVVSGQKQDRQGGERRRSQ LDRDQCAYCKEKGHWAKDCP KKPRGPRGPRPQTSL
tRNApro: GGCUCGUUGGUCUAGGGGUA UGAUUCUCGCUUAGGGUGCG AGAGGUCCCGGGUUCAAAUC CCGGACGAGCC

Data typeCount
13C chemical shifts33
1H chemical shifts250

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1entity_11
2RNA (71-MER)2
3ZINC ION3

Entities:

Entity 1, entity_1 55 residues - 6264.138 Da.

1   ALATHRVALVALSERGLYGLNLYSGLNASP
2   ARGGLNGLYGLYGLUARGARGARGSERGLN
3   LEUASPARGASPGLNCYSALATYRCYSLYS
4   GLULYSGLYHISTRPALALYSASPCYSPRO
5   LYSLYSPROARGGLYPROARGGLYPROARG
6   PROGLNTHRSERLEU

Entity 2, RNA (71-MER) 71 residues - Formula weight is not available

1   GGCUCGUUGG
2   UCUAGGGGUA
3   UGAUUCUCGC
4   UUAGGGUGCG
5   AGAGGUCCCG
6   GGUUCAAAUC
7   CCGGACGAGC
8   C

Entity 3, ZINC ION - Zn - 65.409 Da.

1   ZN

Samples:

sample_1: NC-tRNApro (1:1) 0.5 mM; MgCl2 1 mM; NaCl 10 mM; Tris 10 mM; H2O 90%; D2O 10%

sample_2: NC-tRNApro (1:1), 13C, 15N G-lab tRNA-pro, 0.5 mM; MgCl2 1 mM; NaCl 10 mM; Tris 10 mM; H2O 90%; D2O 10%

sample_3: NC-tRNApro (1:1), 13C, 15N G-lab tRNA-pro13C, 0.5 mM; MgCl2 1 mM; NaCl 10 mM; Tris 10 mM; H2O 90%; D2O 10%

sample_4: NC-tRNApro (1:1), 13C, 15N G-lab tRNA-pro, 0.5 mM; MgCl2 1 mM; NaCl 10 mM; Tris 10 mM; H2O 90%; D2O 10%

sample_5: NC-tRNApro (1:1), 13C, 15N G-lab tRNA-13C, 0.5 mM; MgCl2 1 mM; NaCl 10 mM; Tris 10 mM; H2O 90%; D2O 10%

sample_6: NC-tRNApro (1:1), 13C, 15N G-lab tRNA-pro, 0.5 mM; MgCl2 1 mM; NaCl 10 mM; Tris 10 mM; H2O 90%; D2O 10%

sample_conditions_1: pH: 7.2; pressure: 1 atm; temperature: 311 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCnot availableisotropicsample_conditions_1
2D 1H-15N HSQCnot availableisotropicsample_conditions_1
2D 1H-13C HSQCnot availableisotropicsample_conditions_1
2D 1H-13C HSQCnot availableisotropicsample_conditions_1
2D 1H-13C HSQCnot availableisotropicsample_conditions_1
2D 1H-13C HSQCnot availableisotropicsample_conditions_1
2D NOESYnot availableisotropicsample_conditions_1
2D NOESYnot availableisotropicsample_conditions_1
2D NOESYnot availableisotropicsample_conditions_1
2D NOESYnot availableisotropicsample_conditions_1

Software:

AMBER, Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax, Johnson, One Moon Scientific - data analysis

NMR spectrometers:

  • Bruker DMX 700 MHz

Related Database Links:

BMRB 25052 25100
PDB
GB AAB59942 AAB64159 AAC82566 AAC82568 AAL69908
PRF 0711245A
REF NP_057933 NP_057934 NP_955586
SP P03332 P03355 Q8UN02