BMRB Entry 30724

Name: Cap1G-TPUA
Published: 2020-04-27

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PDB ID: 6vvj
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR30724
MolProbity Validation Chart

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Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Cap1G-TPUA

Deposition date:

2020-02-18

Original release date:

2020-04-27

Authors:

Summers, M.; Brown, J.

Citation:

Citation: Brown, Joshua; Kharytonchyk, Siarhei; Chaudry, Issac; Iyer, Aishwarya; Carter, Hannah; Becker, Ghazal; Desai, Yash; Glang, Lindsay; Choi, Seung; Singh, Karndeep; Lopresti, Michael; Orellana, Matthew; Rodriguez, Tatiana; Oboh, Ubiomo; Hijji, Jana; Ghinger, Frances Grace; Stewart, Kailan; Francis, Dillion; Edwards, Bryce; Chen, Patrick; Case, David; Telesnitsky, Alice; Summers, Michael. "Structural basis for transcriptional start site control of HIV-1 RNA fate" Science 368, 413-417 (2020).
PubMed: 32327595

Assembly members:

Assembly members:
entity_1, polymer, 130 residues, 41923.793 Da.

Natural source:

Natural source: Common Name: HIV-1 Taxonomy ID: 11676 Superkingdom: Viruses Kingdom: not available Genus/species: Lentivirus HIV-1

Experimental source:

Experimental source: Production method: chemical synthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: XGUCUCUCUUGUUAGACCAG GUCGAGCCCGGGAGCUCUCU GGCUAGCAAGGAACCCACUG CUUAAGCCUCAAUAAAGCUU GCCUUGAGUGCCUCAAGCAG UGUGUGCCCAUCUCGAGAGA GAUGGGUGCG

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
1H chemical shifts	613

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	entity_1	1

Entities:

Entity 1, entity_1 130 residues - 41923.793 Da.

1	M7G	G	U	C	U	C	U	C	U	U
2	G	U	U	A	G	A	C	C	A	G
3	G	U	C	G	A	G	C	C	C	G
4	G	G	A	G	C	U	C	U	C	U
5	G	G	C	U	A	G	C	A	A	G
6	G	A	A	C	C	C	A	C	U	G
7	C	U	U	A	A	G	C	C	U	C
8	A	A	U	A	A	A	G	C	U	U
9	G	C	C	U	U	G	A	G	U	G
10	C	C	U	C	A	A	G	C	A	G
11	U	G	U	G	U	G	C	C	C	A
12	U	C	U	C	G	A	G	A	G	A
13	G	A	U	G	G	G	U	G	C	G

Samples:

sample_1: Cap1G-TPUA, 1H, 150 uM; KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM

sample_2: Cap1G-TPUA, Gh, 150 uM; KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM

sample_3: Cap1G-TPUA, A2rGr, 150 uM; KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM

sample_4: Cap1G-TPUA, GhU6r, 150 uM; KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM

sample_5: Cap1G-TPUA, U6r, 150 uM; KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM

sample_6: Cap1G-TPUA, C6r, 150 uM; KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM

sample_7: Cap1G-TPUA, C6rU6r, 150 uM; KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM

sample_8: Cap1G-TPUA, AhCh, 150 uM; KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM

sample_9: Cap1G-TPUA, U6r, 150 uM; KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM

sample_10: Cap1G-TPUA, 1H, 150 uM; KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM

sample_11: Cap1G-TPUA, Gh, 150 uM; KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM

sample_12: KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM; 2G-TPUA, 1H, 150 uM

sample_13: KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM; 2G-TPUA, Ah, 150 uM

sample_14: KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM; 2G-TPUA, Ch, 150 uM

sample_15: KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM; 2G-TPUA, Uh, 150 uM

sample_16: KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM; 2G-TPUA, A2rCr, 150 uM

sample_17: KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM; 2G-TPUA, A2rUr, 150 uM

sample_18: KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM; 2G-TPUA, C6rUr, 150 uM

sample_19: KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM; 2G-TPUA, CrU6r, 150 uM

sample_20: KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM; 2G-TPUA, AhCh, 150 uM

sample_21: KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM; 2G-TPUA, ChGh, 150 uM

sample_22: KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM; 2G-TPUA, GhUh, 150 uM

sample_23: KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 mM; 2G-TPUA, AhUh, 150 uM

sample_24: KH2PO4, Deuterated, 10 mM; MgCl2 1 mM; KCl 122 M; 2G-TPUA, AhGh, 150 uM

sample_conditions_1: ionic strength: 133 mM; pH: 7.4; pressure: 1 atm; temperature: 308 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_2	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_3	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_4	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_5	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_6	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_7	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_8	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_9	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_10	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_11	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_12	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_13	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_14	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_15	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_16	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_17	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_18	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_19	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_20	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_21	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_22	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_23	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_24	isotropic	sample_conditions_1