BMRB: 11134

Solution structure of the HMG box domain from human WD repeat and HMG-box DNA binding protein 1

Authors

Tomizawa, T., Kigawa, T., Saito, K., Koshiba, S., Inoue, M., Kamatari, Y., Yokoyama, S.

Assembly

WD repeat and HMG-box DNA binding protein 1

Entity

1. WD repeat and HMG-box DNA binding protein 1 (polymer, Thiol state: not present), 81 monomers, 8863.661 Da Detail

GSSGSSGRPK TGFQMWLEEN RSNILSDNPD FSDEADIIKE GMIRFRVLST EERKVWANKA KGETASEGTE AKKRKSGPSS G

Formula weight

8863.661 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

torsion angle dynamics, restrainted molecular dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 92.6 %, Completeness: 88.9 %, Completeness (bb): 85.8 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	88.9 % (811 of 912)	89.9 % (434 of 483)	87.5 % (301 of 344)	89.4 % (76 of 85)
Backbone	85.8 % (412 of 480)	88.7 % (149 of 168)	82.9 % (194 of 234)	88.5 % (69 of 78)
Sidechain	92.3 % (465 of 504)	90.5 % (285 of 315)	95.1 % (173 of 182)	100.0 % (7 of 7)
Aromatic	100.0 % (54 of 54)	100.0 % (27 of 27)	100.0 % (25 of 25)	100.0 % (2 of 2)
Methyl	100.0 % (54 of 54)	100.0 % (27 of 27)	100.0 % (27 of 27)

1. HMG box domain

GSSGSSGRPK TGFQMWLEEN RSNILSDNPD FSDEADIIKE GMIRFRVLST EERKVWANKA KGETASEGTE AKKRKSGPSS G

Show sample condition

Sample

Solvent system 90% H2O, 10% D2O, Pressure 1 (±0.001) atm, Temperature 298 (±0.1) K, pH 7.0 (±0.05), Details 1.13mM HMG box domain U-15N, {13C;} 20mM d-Tris-HCl(pH {7.0);} 100mM {NaCl;} 1mM {d-DTT;} 0.02% {NaN3;} 90% H2O, 10% D2O

#	Name	Isotope labeling	Type	Concentration
1	HMG box domain	[U-13C; U-15N]	protein	1.13 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: 2.11 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; CB

Referencing offset: 2.11 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; HA

Referencing offset: 0.12 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: 1.83 ppm, Outliers: 2 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: 2D7L, Strand ID: A Detail

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Release date

2011-03-31

Citation

Solution structure of the HMG box domain from human WD repeat and HMG-box DNA binding protein 1
Tomizawa, T., Kigawa, T., Saito, K., Koshiba, S., Inoue, M., Kamatari, Y., Yokoyama, S.

Related entities 1. WD repeat and HMG-box DNA binding protein 1, : 1 : 6 : 19 entities Detail

Interaction partners 1. WD repeat and HMG-box DNA binding protein 1, : 7 interactors Detail

Experiments performed 2 experiments Detail