BMRB Entry 17139

Name: Structure of ARC92VBD/MED25ACID
Published: 2011-06-07

Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR17139

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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:

Structure of ARC92VBD/MED25ACID

Deposition date:

2010-08-21

Original release date:

2011-06-07

Authors:

Milbradt, Alexander; Sun, Zhen-Yu; Selenko, Philipp; Takeuchi, Koh; Naar, Anders; Wagner, Gerhard

Citation:

Citation: Milbradt, Alexander; Kulkarni, Madhura; Yi, Tingfang; Takeuchi, Koh; Sun, Zhen-Yu; Luna, Rafael; Selenko, Philipp; Naar, Anders; Wagner, Gerhard. "Structure of the VP16 transactivator target in the Mediator" Nat. Struct. Mol. Biol. 18, 410-415 (2011).
PubMed: 21378963

Assembly members:

Assembly members:
ARC92VBD, polymer, 166 residues, 37940.359 Da.

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: p-his-parallel

Entity Sequences (FASTA):

Entity Sequences (FASTA):
ARC92VBD: GEFGQQSVSNKLLAWSGVLE WQEKPKPASVDANTKLTRSL PCQVYVNHGENLKTEQWPQK LIMQLIPQQLLTTLGPLFRN SRMVQFHFTNKDLESLKGLY RIMGNGFAGCVHFPHTAPCE VRVLMLLYSSKKKIFMGLIP YDQSGFVNGIRQVITNHKQV QQQKLE

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	584
15N chemical shifts	156
1H chemical shifts	1052

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	ARC92VBD	1

Entities:

Entity 1, ARC92VBD 166 residues - 37940.359 Da.

Residues 388-390 represent a cloning site and are not part of the natural sequence

1

GLY

GLU

PHE

GLY

GLN

SER

VAL

SER

ASN

2

LYS

LEU

ALA

TRP

SER

GLY

VAL

LEU

GLU

3

TRP

GLN

GLU

LYS

PRO

LYS

PRO

ALA

SER

VAL

4

ASP

ALA

ASN

THR

LYS

LEU

THR

ARG

SER

LEU

5

PRO

CYS

GLN

VAL

TYR

VAL

ASN

HIS

GLY

GLU

6

ASN

LEU

LYS

THR

GLU

GLN

TRP

PRO

GLN

LYS

7

LEU

ILE

MET

GLN

LEU

ILE

PRO

GLN

LEU

8

LEU

THR

LEU

GLY

PRO

LEU

PHE

ARG

ASN

9

SER

ARG

MET

VAL

GLN

PHE

HIS

PHE

THR

ASN

10

LYS

ASP

LEU

GLU

SER

LEU

LYS

GLY

LEU

TYR

11

ARG

ILE

MET

GLY

ASN

GLY

PHE

ALA

GLY

CYS

12

VAL

HIS

PHE

PRO

HIS

THR

ALA

PRO

CYS

GLU

13

VAL

ARG

VAL

LEU

MET

LEU

TYR

SER

14

LYS

ILE

PHE

MET

GLY

LEU

ILE

PRO

15

TYR

ASP

GLN

SER

GLY

PHE

VAL

ASN

GLY

ILE

16

ARG

GLN

VAL

ILE

THR

ASN

HIS

LYS

GLN

VAL

17

GLN

LYS

LEU

GLU

Samples:

n15: ARC92VBD, [U-99% 15N], 50 – 1000 uM; H2O 95%; D2O 5%

D20: ARC92VBD 1.0 mM; D2O 100%

n15_c13: ARC92VBD, [U-99% 13C; U-99% 15N], 200-1000 uM; H2O 95%; D2O 5%

n15_c13_d2: ARC92VBD, [U-100% 13C; U-100% 15N; U-80% 2H], 700 uM; H2O 95%; D2O 5%

ILV: ARC92VBD, [ILV-100% 13C1H; U-100% 15N; U-100% 2H], 700 uM; D2O 100%

sample_conditions_1: ionic strength: 150 mM; pH: 6.5; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	n15	isotropic	sample_conditions_1
2D 1H-15N HSQC	n15	isotropic	sample_conditions_1
2D 1H-1H NOESY	D20	isotropic	sample_conditions_1
3D 1H-15N NOESY	n15	isotropic	sample_conditions_1
3D 1H-13C NOESY	n15_c13	isotropic	sample_conditions_1
3D HNCO	n15_c13_d2	isotropic	sample_conditions_1
3D HNCA	n15_c13_d2	isotropic	sample_conditions_1
3D HN(CO)CA	n15_c13_d2	isotropic	sample_conditions_1
3D HNCACB	n15_c13_d2	isotropic	sample_conditions_1
3D HCCH-TOCSY	n15_c13	isotropic	sample_conditions_1
2D 1H-13C HSQC	n15_c13	isotropic	sample_conditions_1
4D HMQCNOESYHMQC	ILV	isotropic	sample_conditions_1

Software:

CYANA v3.0, Guntert, Mumenthaler and Wuthrich - structure solution

CNS v1.1, Brunger, Adams, Clore, Gros, Nilges and Read - refinement

CARA v1.8.4, Keller and Wuthrich - chemical shift assignment, peak picking

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

NMR spectrometers:

Varian Inova 600 MHz
Varian Inova 500 MHz
Bruker Avance 900 MHz
Bruker Avance 750 MHz

BMRB	17323
PDB	2KY6 2L23 2L6U 2XNF
DBJ	BAE29135 BAF82149 BAG51583 BAG61008
EMBL	CAB66680 CAE84581
GB	AAG15589 AAH21333 AAH24312 AAH31138 AAH65297
REF	NP_001075914 NP_001163897 NP_083641 NP_112235 XP_001115473
SP	A2VE44 Q71SY5 Q8VCB2
TPG	DAA19611
AlphaFold	A2VE44 Q71SY5 Q8VCB2