BMRB Entry 19791

Name: Structural Characterization of a Complex Between the Acidic Transactivation Domain of EBNA2 and the Tfb1/p62 subunit of TFIIH.
Published: 2014-03-03

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PDB ID: 2mkr
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, SPARTA
BMRB Entry DOI: doi:10.13018/BMR19791
MolProbity Validation Chart

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Nicholas Rego and David Koes
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title: Structural Characterization of a Complex Between the Acidic Transactivation Domain of EBNA2 and the Tfb1/p62 subunit of TFIIH. PubMed: 24675874

Deposition date: 2014-02-12 Original release date: 2014-03-03

Authors: R. Chabot, Philippe; Raiola, Luca; Lussier-Price, Mathieu; Morse, Thomas; Arseneault, Genevieve; Archambault, Jacques; Omichinski, James

Citation: Chabot, Philippe; Raiola, Luca; Lussier-Price, Mathieu; Morse, Thomas; Arseneault, Genevieve; Archambault, Jacques; Omichinski, James. "Structural and functional characterization of a complex between the acidic transactivation domain of EBNA2 and the Tfb1/p62 subunit of TFIIH." PLoS Pathog. 10, e1004042-e1004042 (2014).

Assembly members:
Tfb1, polymer, 115 residues, 12903.807 Da.
EBNA2, polymer, 13 residues, 1633.681 Da.

Natural source: Common Name: baker Taxonomy ID: 4932 Superkingdom: not available Kingdom: not available Genus/species: Eukaryota Fungi

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

Entity Sequences (FASTA):
Tfb1: PSHSGAAIFEKVSGIIAINE DVSPAELTWRSTDGDKVHTV VLSTIDKLQATPASSEKMML RLIGKVDESKKRKDNEGNEV VPKPQRHMFSFNNRTVMDNI KMTLQQIISRYKDAD
EBNA2: DLDESWDYIFETT

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1
- assigned_chem_shift_list_2

Data type	Count
13C chemical shifts	441
15N chemical shifts	121
1H chemical shifts	870

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	Tfb1	1
2	EBNA2	2

Entities:

Entity 1, Tfb1 115 residues - 12903.807 Da.

1

PRO

SER

HIS

SER

GLY

ALA

ILE

PHE

GLU

2

LYS

VAL

SER

GLY

ILE

ALA

ILE

ASN

GLU

3

ASP

VAL

SER

PRO

ALA

GLU

LEU

THR

TRP

ARG

4

SER

THR

ASP

GLY

ASP

LYS

VAL

HIS

THR

VAL

5

VAL

LEU

SER

THR

ILE

ASP

LYS

LEU

GLN

ALA

6

THR

PRO

ALA

SER

GLU

LYS

MET

LEU

7

ARG

LEU

ILE

GLY

LYS

VAL

ASP

GLU

SER

LYS

8

LYS

ARG

LYS

ASP

ASN

GLU

GLY

ASN

GLU

VAL

9

VAL

PRO

LYS

PRO

GLN

ARG

HIS

MET

PHE

SER

10

PHE

ASN

ARG

THR

VAL

MET

ASP

ASN

ILE

11

LYS

MET

THR

LEU

GLN

ILE

SER

ARG

12

TYR

LYS

ASP

ALA

ASP

Entity 2, EBNA2 13 residues - 1633.681 Da.

1

ASP

LEU

ASP

GLU

SER

TRP

ASP

TYR

ILE

PHE

2

GLU

THR

Samples:

sample_1: Tfb1, [U-13C; U-15N], 0.7 mM; EBNA2 2.1 mM; sodium phosphate 20 mM; DTT 1 mM; H2O 90%; D2O 10%

sample_2: Tfb1, [U-15N], 0.7 mM; EBNA2 2.1 mM; sodium phosphate 20 mM; DTT 1 mM; H2O 90%; D2O 10%

sample_3: Tfb1, [U-13C; U-15N], 0.7 mM; EBNA2 2.1 mM; sodium phosphate 20 mM; DTT 1 mM; D2O 100%

sample_4: EBNA2, [U-13C; U-15N], 0.5 mM; Tfb1 1.5 mM; sodium phosphate 20 mM; DTT 1 mM; H2O 90%; D2O 10%

sample_5: EBNA2, [U-100% 15N], 0.5 mM; Tfb1 1.5 mM; sodium phosphate 20 mM; DTT 1 mM; H2O 90%; D2O 10%

sample_6: EBNA2, [U-13C; U-15N], 0.5 mM; Tfb1 1.5 mM; sodium phosphate 20 mM; DTT 1 mM; D2O 100%

sample_conditions_1: ionic strength: 20 mM; pH: 6.5; pressure: 1 atm; temperature: 300 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_4	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_3	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_6	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_2	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_5	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_3	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_6	isotropic	sample_conditions_1
2D 1H-13C HSQC aromatic	sample_6	isotropic	sample_conditions_1
3D 1H-13C NOESY aromatic	sample_6	isotropic	sample_conditions_1
3D 1H-13C-12C intermolecular NOESY	sample_3	isotropic	sample_conditions_1
3D 1H-13C-12C intermolecular NOESY	sample_6	isotropic	sample_conditions_1
3D HNCO	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_4	isotropic	sample_conditions_1
3D HNCACB	sample_1	isotropic	sample_conditions_1
3D HNCACB	sample_4	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_1	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_4	isotropic	sample_conditions_1
3D H(CCO)NH	sample_1	isotropic	sample_conditions_1
3D H(CCO)NH	sample_4	isotropic	sample_conditions_1
3D HCCH-COSY	sample_1	isotropic	sample_conditions_1
3D HCCH-COSY	sample_4	isotropic	sample_conditions_1

Software:

CNS, Brunger, Adams, Clore, Gros, Nilges and Read - structure solution

CCPNMR, CCPN - data analysis

TALOS vTALOS-N, Cornilescu, Delaglio and Bax - geometry optimization

VNMR, Varian - collection

NMR spectrometers:

Varian INOVA 500 MHz
Varian INOVA 600 MHz
Varian INOVA 800 MHz

BMRB	18229 18842 25540
PDB	1Y5O 2GS0 2K2U 2L2I 2LOX 2M14 2MKR 2N0Y
DBJ	GAA22531
EMBL	CAY78811
GB	AAA35143 AAB64747 AAU09707 AHY75284 AJP38011
REF	NP_010597
SP	P32776
TPG	DAA12150

Biological Magnetic Resonance Data Bank