BMRB Entry 51329

Name: PBRM1 Bromodomain 4
Published: 2023-07-04

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR51329

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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:

PBRM1 Bromodomain 4

Deposition date:

2022-02-14

Original release date:

2023-07-04

Authors:

De Silva, Saumya; Sood, Surbhi; Dhiman, Alisha; Mercedes, Kilsia; Henen, Morkos; Vogeli, Beat; Dykhuizen, Emily; Musselman, Catherine

Citation:

Citation: De Silva, Saumya; Sood, Surbhi; Dhiman, Alisha; Mercedes, Kilsia; Henen, Morkos; Vogeli, Beat; Dykhuizen, Emily; Musselman, Catherine. "PBRM1 BD2 and BD4 associate with RNA to facilitate chromatin association" Nucleic Acids Res. ., .-..

Assembly members:

Assembly members:
entity_1, polymer, 150 residues, Formula weight is not available

Natural source:

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

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pNIC-CTHF

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: MGDSMISSATSDTGSAKRKS KKNIRKQRMKILFNVVLEAR EPGSGRRLCDLFMVKPSKKD YPDYYKIILEPMDLKIIEHN IRNDKYAGEEGMIEDMKLMF RNARHYNEEGSQVYNDAHIL EKLLKEKRKELGPLPDDDDM ASPAENLYFQ

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1
spectral_peak_list

Data type	Count
13C chemical shifts	340
15N chemical shifts	100
1H chemical shifts	100

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	PBRM1 Bromodomain 4	1

Entities:

Entity 1, PBRM1 Bromodomain 4 150 residues - Formula weight is not available

1	MET	GLY	ASP	SER	MET	ILE	SER	SER	ALA	THR
2	SER	ASP	THR	GLY	SER	ALA	LYS	ARG	LYS	SER
3	LYS	LYS	ASN	ILE	ARG	LYS	GLN	ARG	MET	LYS
4	ILE	LEU	PHE	ASN	VAL	VAL	LEU	GLU	ALA	ARG
5	GLU	PRO	GLY	SER	GLY	ARG	ARG	LEU	CYS	ASP
6	LEU	PHE	MET	VAL	LYS	PRO	SER	LYS	LYS	ASP
7	TYR	PRO	ASP	TYR	TYR	LYS	ILE	ILE	LEU	GLU
8	PRO	MET	ASP	LEU	LYS	ILE	ILE	GLU	HIS	ASN
9	ILE	ARG	ASN	ASP	LYS	TYR	ALA	GLY	GLU	GLU
10	GLY	MET	ILE	GLU	ASP	MET	LYS	LEU	MET	PHE
11	ARG	ASN	ALA	ARG	HIS	TYR	ASN	GLU	GLU	GLY
12	SER	GLN	VAL	TYR	ASN	ASP	ALA	HIS	ILE	LEU
13	GLU	LYS	LEU	LEU	LYS	GLU	LYS	ARG	LYS	GLU
14	LEU	GLY	PRO	LEU	PRO	ASP	ASP	ASP	ASP	MET
15	ALA	SER	PRO	ALA	GLU	ASN	LEU	TYR	PHE	GLN

Samples:

sample_1: PBRM1 Bromodomain 4, [U-100% 13C; U-100% 15N], 1 mM; potassium chloride 50 mM; potassium phosphate 50 mM; DTT 2 mM; EDTA 2 mM

sample_conditions_1: ionic strength: 50 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
3D HNCACB	sample_1	isotropic	sample_conditions_1
3D HNCOCACB	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_1	isotropic	sample_conditions_1

Software:

CcpNMR v2.5.2 - chemical shift assignment, peak picking

NMRPipe - peak picking, processing

TOPSPIN v4.0.6 - collection, data analysis

NMR spectrometers:

Bruker Avance II 500 MHz

Download HSQC peak lists in one of the following formats:
CSV: Backbone or all simulated peaks
SPARKY: Backbone or all simulated peaks

1	MET	GLY	ASP	SER	MET	ILE	SER	SER	ALA	THR
2	SER	ASP	THR	GLY	SER	ALA	LYS	ARG	LYS	SER
3	LYS	LYS	ASN	ILE	ARG	LYS	GLN	ARG	MET	LYS
4	ILE	LEU	PHE	ASN	VAL	VAL	LEU	GLU	ALA	ARG
5	GLU	PRO	GLY	SER	GLY	ARG	ARG	LEU	CYS	ASP
6	LEU	PHE	MET	VAL	LYS	PRO	SER	LYS	LYS	ASP
7	TYR	PRO	ASP	TYR	TYR	LYS	ILE	ILE	LEU	GLU
8	PRO	MET	ASP	LEU	LYS	ILE	ILE	GLU	HIS	ASN
9	ILE	ARG	ASN	ASP	LYS	TYR	ALA	GLY	GLU	GLU
10	GLY	MET	ILE	GLU	ASP	MET	LYS	LEU	MET	PHE
11	ARG	ASN	ALA	ARG	HIS	TYR	ASN	GLU	GLU	GLY
12	SER	GLN	VAL	TYR	ASN	ASP	ALA	HIS	ILE	LEU
13	GLU	LYS	LEU	LEU	LYS	GLU	LYS	ARG	LYS	GLU
14	LEU	GLY	PRO	LEU	PRO	ASP	ASP	ASP	ASP	MET
15	ALA	SER	PRO	ALA	GLU	ASN	LEU	TYR	PHE	GLN

1	MET	GLY	ASP	SER	MET	ILE	SER	SER	ALA	THR
2	SER	ASP	THR	GLY	SER	ALA	LYS	ARG	LYS	SER
3	LYS	LYS	ASN	ILE	ARG	LYS	GLN	ARG	MET	LYS
4	ILE	LEU	PHE	ASN	VAL	VAL	LEU	GLU	ALA	ARG
5	GLU	PRO	GLY	SER	GLY	ARG	ARG	LEU	CYS	ASP
6	LEU	PHE	MET	VAL	LYS	PRO	SER	LYS	LYS	ASP
7	TYR	PRO	ASP	TYR	TYR	LYS	ILE	ILE	LEU	GLU
8	PRO	MET	ASP	LEU	LYS	ILE	ILE	GLU	HIS	ASN
9	ILE	ARG	ASN	ASP	LYS	TYR	ALA	GLY	GLU	GLU
10	GLY	MET	ILE	GLU	ASP	MET	LYS	LEU	MET	PHE
11	ARG	ASN	ALA	ARG	HIS	TYR	ASN	GLU	GLU	GLY
12	SER	GLN	VAL	TYR	ASN	ASP	ALA	HIS	ILE	LEU
13	GLU	LYS	LEU	LEU	LYS	GLU	LYS	ARG	LYS	GLU
14	LEU	GLY	PRO	LEU	PRO	ASP	ASP	ASP	ASP	MET
15	ALA	SER	PRO	ALA	GLU	ASN	LEU	TYR	PHE	GLN

1	MET	GLY	ASP	SER	MET	ILE	SER	SER	ALA	THR
2	SER	ASP	THR	GLY	SER	ALA	LYS	ARG	LYS	SER
3	LYS	LYS	ASN	ILE	ARG	LYS	GLN	ARG	MET	LYS
4	ILE	LEU	PHE	ASN	VAL	VAL	LEU	GLU	ALA	ARG
5	GLU	PRO	GLY	SER	GLY	ARG	ARG	LEU	CYS	ASP
6	LEU	PHE	MET	VAL	LYS	PRO	SER	LYS	LYS	ASP
7	TYR	PRO	ASP	TYR	TYR	LYS	ILE	ILE	LEU	GLU
8	PRO	MET	ASP	LEU	LYS	ILE	ILE	GLU	HIS	ASN
9	ILE	ARG	ASN	ASP	LYS	TYR	ALA	GLY	GLU	GLU
10	GLY	MET	ILE	GLU	ASP	MET	LYS	LEU	MET	PHE
11	ARG	ASN	ALA	ARG	HIS	TYR	ASN	GLU	GLU	GLY
12	SER	GLN	VAL	TYR	ASN	ASP	ALA	HIS	ILE	LEU
13	GLU	LYS	LEU	LEU	LYS	GLU	LYS	ARG	LYS	GLU
14	LEU	GLY	PRO	LEU	PRO	ASP	ASP	ASP	ASP	MET
15	ALA	SER	PRO	ALA	GLU	ASN	LEU	TYR	PHE	GLN