BMRB: 11158

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

Authors

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

Assembly

Transcription factor SOX-17

Entity

1. Transcription factor SOX-17 (polymer, Thiol state: not present), 82 monomers, 9276.414 Da Detail

GSSGSSGIRR PMNAFMVWAK DERKRLAQQN PDLHNAELSK MLGKSWKALT LAEKRPFVEE AERLRVQHMQ DHPNYKSGPS SG

Formula weight

9276.414 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 93.9 %, Completeness: 92.6 %, Completeness (bb): 89.8 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	92.6 % (894 of 965)	92.0 % (473 of 514)	94.0 % (342 of 364)	90.8 % (79 of 87)
Backbone	89.8 % (433 of 482)	88.5 % (146 of 165)	90.8 % (218 of 240)	89.6 % (69 of 77)
Sidechain	95.3 % (533 of 559)	93.7 % (327 of 349)	98.0 % (196 of 200)	100.0 % (10 of 10)
Aromatic	100.0 % (64 of 64)	100.0 % (32 of 32)	100.0 % (30 of 30)	100.0 % (2 of 2)
Methyl	100.0 % (60 of 60)	100.0 % (30 of 30)	100.0 % (30 of 30)

1. HMG (high mobility group) box

GSSGSSGIRR PMNAFMVWAK DERKRLAQQN PDLHNAELSK MLGKSWKALT LAEKRPFVEE AERLRVQHMQ DHPNYKSGPS SG

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 (±0.001) atm, Temperature 296 (±0.1) K, pH 7.0 (±0.05), Details 1.1mM {Protein;} 20mM {d-Tris-HCl;} 100mM {NaCl;} 1mM {d-DTT;} 0.02% {NaN3;} 90% H2O, 10% D2O

#	Name	Isotope labeling	Type	Concentration
1	HMG (high mobility group) box	[U-13C; U-15N]	protein	1.1 mM
2	d-Tris-HCl	natural abundance	buffer	20 mM
3	NaCl	natural abundance	salt	100 mM
4	d-DTT	natural abundance	salt	1 mM
5	NaN3	natural abundance	salt	0.02 %
6	H2O		solvent	90 %
7	D2O		solvent	10 %

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LACS Plot; CA

Referencing offset: -0.36 ppm, Outliers: 3 Detail

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Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; CB

Referencing offset: -0.36 ppm, Outliers: 3 Detail

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Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; HA

Referencing offset: 0.11 ppm, Outliers: 1 Detail

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Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; CO

Referencing offset: -0.36 ppm, Outliers: 1 Detail

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Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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Protein Blocks Logo

Calculated from 20 models in PDB: 2YUL, Strand ID: A Detail

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Release date

2011-05-04

Citation

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

Related entities 1. Transcription factor SOX-17, : 1 : 4 : 272 entities Detail

Interaction partners 1. Transcription factor SOX-17, : 6 interactors Detail

Experiments performed 2 experiments Detail