BMRB Entry 11158

Name: Solution structure of the HMG box of human Transcription factor SOX-17
Published: 2011-05-05

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PDB ID: 2yul
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR11158
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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:

Solution structure of the HMG box of human Transcription factor SOX-17

Deposition date:

2010-04-15

Original release date:

2011-05-05

Authors:

Abe, H.; Tochio, N.; Miyamoto, K.; Koshiba, S.; Inoue, M.; Kigawa, T.; Yokoyama, S.

Citation:

Citation: Abe, H.; Tochio, N.; Miyamoto, K.; Koshiba, S.; Inoue, M.; Kigawa, T.; Yokoyama, S.. "Solution structure of the HMG box of human Transcription factor SOX-17" .

Assembly members:

Assembly members:
HMG (high mobility group) box, polymer, 82 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: cell free synthesis Host organism: E. coli - cell free Vector: P051003-07

Entity Sequences (FASTA):

Entity Sequences (FASTA):
HMG (high mobility group) box: GSSGSSGIRRPMNAFMVWAK DERKRLAQQNPDLHNAELSK MLGKSWKALTLAEKRPFVEE AERLRVQHMQDHPNYKSGPS SG

Data sets:

assigned_chemical_shifts
- chemical_shift_1

Data type	Count
13C chemical shifts	331
15N chemical shifts	77
1H chemical shifts	532

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	HMG (high mobility group) box	1

Entities:

Entity 1, HMG (high mobility group) box 82 residues - Formula weight is not available

1

GLY

SER

GLY

SER

GLY

ILE

ARG

2

PRO

MET

ASN

ALA

PHE

MET

VAL

TRP

ALA

LYS

3

ASP

GLU

ARG

LYS

ARG

LEU

ALA

GLN

ASN

4

PRO

ASP

LEU

HIS

ASN

ALA

GLU

LEU

SER

LYS

5

MET

LEU

GLY

LYS

SER

TRP

LYS

ALA

LEU

THR

6

LEU

ALA

GLU

LYS

ARG

PRO

PHE

VAL

GLU

7

ALA

GLU

ARG

LEU

ARG

VAL

GLN

HIS

MET

GLN

8

ASP

HIS

PRO

ASN

TYR

LYS

SER

GLY

PRO

SER

9

SER

GLY

Samples:

sample_1: HMG (high mobility group) box, [U-13C; U-15N], 1.1 mM; d-Tris-HCl 20 mM; NaCl 100 mM; d-DTT 1 mM; NaN3 0.02%; H2O 90%; D2O 10%

condition_1: ionic strength: 120 mM; pH: 7.0; pressure: 1 atm; temperature: 296 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 15N-separated NOESY	sample_1	isotropic	condition_1
3D 13C-separated NOESY	sample_1	isotropic	condition_1

Software:

TOPSPIN v1.3, Bruker - collection

NMRPipe v20031121, Delaglio, F. - processing

NMRView v5.0.4, Johnson, B.A. - data analysis

Kujira v0.9747, Kobayashi, N. - data analysis

CYANA v2.0.17, Guntert, P. - structure solution

NMR spectrometers:

Bruker AVANCE 900 MHz

PDB	2YUL 4A3N
GB	AAA56843 EDM11594 EDM11595 ERE85977
REF	NP_001101372 XP_004410083 XP_004435766 XP_005085983 XP_005322972