BMRB Entry 6099

Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR6099

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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:

Backbone 1H, 13C, and 15N chemical shift assignments for the activation domain of the transcriptional activator VP16

Deposition date:

2004-02-13

Original release date:

2004-09-28

Authors:

Jonker, Henry; Folkers, Gert; Wechselberger, Rainer; Boelens, Rolf; Kaptein, Rob

Citation:

Citation: Jonker, Henry. "Structural and functional studies on transcriptional activation - Interactions of the cofactor PC4 and activator VP16" Thesis Utrecht University (2003).

Assembly members:

Assembly members:
herpes simplex virion protein 16, polymer, 80 residues, 8394 Da.

Natural source:

Natural source: Common Name: Herpes Simplex Virus Taxonomy ID: 10298 Superkingdom: Viruses Kingdom: not available Genus/species: Herpes simplex

Experimental source:

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

Entity Sequences (FASTA):

Entity Sequences (FASTA):
herpes simplex virion protein 16: STAPPTDVSLGDELHLDGED VAMAHADALDDFDLDMLGDG DSPGPGFTPHDSAPYGALDT ADFEFEQMFTDALGIDEYGG

Data sets:

assigned_chemical_shifts
- chemical_shift_VP16_298K_LS

Data type	Count
13C chemical shifts	224
15N chemical shifts	73
1H chemical shifts	294

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	VP16 activation domain	1

Entities:

Entity 1, VP16 activation domain 80 residues - 8394 Da.

1	SER	THR	ALA	PRO	PRO	THR	ASP	VAL	SER	LEU
2	GLY	ASP	GLU	LEU	HIS	LEU	ASP	GLY	GLU	ASP
3	VAL	ALA	MET	ALA	HIS	ALA	ASP	ALA	LEU	ASP
4	ASP	PHE	ASP	LEU	ASP	MET	LEU	GLY	ASP	GLY
5	ASP	SER	PRO	GLY	PRO	GLY	PHE	THR	PRO	HIS
6	ASP	SER	ALA	PRO	TYR	GLY	ALA	LEU	ASP	THR
7	ALA	ASP	PHE	GLU	PHE	GLU	GLN	MET	PHE	THR
8	ASP	ALA	LEU	GLY	ILE	ASP	GLU	TYR	GLY	GLY

Samples:

sample_VP16_298K_LS: herpes simplex virion protein 16, [U-13C; U-15N], 0.5 – 1 mM; KCl 50 mM; KHxPO4 50 mM; D5-Glycin 2 M; Protease Inhibitor cocktail mM

condition_VP16_298K_LS: pH: 5.6; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
Spectrometer was locked on deuterated glycine.	sample_VP16_298K_LS	not available	condition_VP16_298K_LS
Triple resonance probes.	sample_VP16_298K_LS	not available	condition_VP16_298K_LS

Software:

NMRPipe - processing

SPARKY v3 - analyses, assignment

NMR spectrometers:

Bruker Avance 500 MHz
Bruker Avance 600 MHz
Bruker Avance 750 MHz
Varian Inova 500 MHz
Varian Inova 750 MHz

DBJ	BAL03259 BAM21067 BAM21069 BAM21071 BAM21075
EMBL	CAA26913 CAA32298 CAI26306 CAQ68373
GB	AAA45766 AAB72093 AAF89185 AAG02187 AAG36984
REF	NP_044650
SP	P04486 P06492
AlphaFold	P04486 P06492

1	SER	THR	ALA	PRO	PRO	THR	ASP	VAL	SER	LEU
2	GLY	ASP	GLU	LEU	HIS	LEU	ASP	GLY	GLU	ASP
3	VAL	ALA	MET	ALA	HIS	ALA	ASP	ALA	LEU	ASP
4	ASP	PHE	ASP	LEU	ASP	MET	LEU	GLY	ASP	GLY
5	ASP	SER	PRO	GLY	PRO	GLY	PHE	THR	PRO	HIS
6	ASP	SER	ALA	PRO	TYR	GLY	ALA	LEU	ASP	THR
7	ALA	ASP	PHE	GLU	PHE	GLU	GLN	MET	PHE	THR
8	ASP	ALA	LEU	GLY	ILE	ASP	GLU	TYR	GLY	GLY

1	SER	THR	ALA	PRO	PRO	THR	ASP	VAL	SER	LEU
2	GLY	ASP	GLU	LEU	HIS	LEU	ASP	GLY	GLU	ASP
3	VAL	ALA	MET	ALA	HIS	ALA	ASP	ALA	LEU	ASP
4	ASP	PHE	ASP	LEU	ASP	MET	LEU	GLY	ASP	GLY
5	ASP	SER	PRO	GLY	PRO	GLY	PHE	THR	PRO	HIS
6	ASP	SER	ALA	PRO	TYR	GLY	ALA	LEU	ASP	THR
7	ALA	ASP	PHE	GLU	PHE	GLU	GLN	MET	PHE	THR
8	ASP	ALA	LEU	GLY	ILE	ASP	GLU	TYR	GLY	GLY