BMRB Entry 19023

Name: Solution structure and sigma factor interactions of Mycobacterium tuberculosis RNA polymerase binding protein A
Published: 2013-04-11

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PDB ID: 2m4v
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR19023
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title: Solution structure and sigma factor interactions of Mycobacterium tuberculosis RNA polymerase binding protein A PubMed: 23548911

Deposition date: 2013-02-11 Original release date: 2013-04-11

Authors: Bortoluzzi, Alessio; Muskett, Frederick; Waters, Lorna; Adiss, Philip; Rieck, Barbara; Munder, Thomas; Schleier, Susanne; Forti, Francesca; Ghisotti, Daniela; Carr, Mark; O'Hare, Helen

Citation: Bortoluzzi, Alessio; Muskett, Frederick; Waters, Lorna; Adiss, Philip; Rieck, Barbara; Munder, Thomas; Schleier, Susanne; Forti, Francesca; Ghisotti, Daniela; Carr, Mark; O'Hare, Helen. "Structural characterization of Mycobacterium tuberculosis RNA polymerase binding protein A (RbpA) and its interactions with sigma factors" J. Biol. Chem. 288, 14438-14450 (2013).

Assembly members:
entity, polymer, 80 residues, 9026.145 Da.

Natural source: Common Name: Mycobacterium tuberculosis Taxonomy ID: 1773 Superkingdom: Bacteria Kingdom: not available Genus/species: Mycobacterium tuberculosis

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

Entity Sequences (FASTA):
entity: SMADRVLRGSRLGAVSYETD RNHDLAPRQIARYRTDNGEE FEVPFADDAEIPGTWLCRNG MEGTLIEGDLPEPKKVKPPR

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	252
15N chemical shifts	76
1H chemical shifts	485

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	RNA polymerase binding protein A (RbpA)	1

Entities:

Entity 1, RNA polymerase binding protein A (RbpA) 80 residues - 9026.145 Da.

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

Samples:

sample_1: RbpA, [U-15N], 0.30 – 0.35 mM; potassium chloride 100 mM; potassium phosphate 25 mM; DTT 0.5 mM; EDTA 0.5 mM; sodium azide 0.02 % w/v; TCEP 0.5 mM; AEBSF protease inhibitor 0.2 mM

sample_2: RbpA, [U-13C; U-15N]-His-Phe-Tyr-Trp, 0.30 – 0.35 mM; potassium chloride 100 mM; potassium phosphate 25 mM; DTT 0.5 mM; EDTA 0.5 mM; sodium azide 0.02 % w/v; TCEP 0.5 mM; AEBSF protease inhibitor 0.2 mM

sample_3: RbpA, [U-15N], 0.30 – 0.35 mM; potassium chloride 100 mM; potassium phosphate 25 mM; DTT 0.5 mM; EDTA 0.5 mM; sodium azide 0.02 % w/v; TCEP 0.5 mM; AEBSF protease inhibitor 0.2 mM

sample_conditions_1: ionic strength: 0.1 M; pH: 6.5; pressure: 1 atm; temperature: 308 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-1H TOCSY	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_3	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_3	isotropic	sample_conditions_1
3D HNCACB	sample_2	isotropic	sample_conditions_1
3D HNCO	sample_2	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_2	isotropic	sample_conditions_1
3D 1H-15N TOCSY	sample_3	isotropic	sample_conditions_1

Software:

TOPSPIN, Bruker Biospin - collection, processing

AMBER, Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman - refinement

CYANA, Guntert, Mumenthaler and Wuthrich - structure solution

SPARKY, Goddard - data analysis

NMR spectrometers:

Bruker Avance 600 MHz
Bruker DRX 600 MHz
Bruker Avance II 800 MHz

BMRB	19149
PDB	2M4V 2M6P 4X8K
DBJ	BAH26349 BAL66056 BAN31760 BAQ06108 GAA45755
EMBL	CAB11301 CAC30389 CAL72057 CAR71533 CCC27135
GB	AAK46389 AAS04115 ABK68564 ABQ73825 ABR06418
REF	NP_216566 NP_302017 NP_855726 WP_003410601 WP_003872122
SP	P9WHJ4 P9WHJ5

Biological Magnetic Resonance Data Bank