BMRB: 11147

Solution structure of the tandem HMG box domain from Human High mobility group protein B1

Authors

Tomizawa, T., Koshiba, S., Watanabe, S., Harada, T., Kigawa, T., Yokoyama, S.

Assembly

High mobility group protein B1

Entity

1. High mobility group protein B1 (polymer, Thiol state: all free), 173 monomers, 19629.28 Da Detail

GSSGSSGMGK GDPKKPRGKM SSYAFFVQTC REEHKKKHPD ASVNFSEFSK KCSERWKTMS AKEKGKFEDM AKADKARYER EMKTYIPPKG ETKKKFKDPN APKRPPSAFF LFCSEYRPKI KGEHPGLSIG DVAKKLGEMW NNTAADDKQP YEKKAAKLKE KYEKDIAAYR AKG

Formula weight

19629.28 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: 98.8 %, Completeness: 97.7 %, Completeness (bb): 96.6 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	97.7 % (2046 of 2095)	97.9 % (1101 of 1125)	97.4 % (780 of 801)	97.6 % (165 of 169)
Backbone	96.6 % (980 of 1014)	96.8 % (336 of 347)	96.2 % (487 of 506)	97.5 % (157 of 161)
Sidechain	98.6 % (1224 of 1241)	98.3 % (765 of 778)	99.1 % (451 of 455)	100.0 % (8 of 8)
Aromatic	97.8 % (178 of 182)	97.8 % (89 of 91)	97.8 % (87 of 89)	100.0 % (2 of 2)
Methyl	100.0 % (86 of 86)	100.0 % (43 of 43)	100.0 % (43 of 43)

1. HMG box domain

GSSGSSGMGK GDPKKPRGKM SSYAFFVQTC REEHKKKHPD ASVNFSEFSK KCSERWKTMS AKEKGKFEDM AKADKARYER EMKTYIPPKG ETKKKFKDPN APKRPPSAFF LFCSEYRPKI KGEHPGLSIG DVAKKLGEMW NNTAADDKQP YEKKAAKLKE KYEKDIAAYR AKG

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 1.09mM 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	1.09 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: 2.29 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: 2.29 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: 0.18 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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LACS Plot; CO

Referencing offset: 2.05 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: 2YRQ, Strand ID: A Detail

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Release date

2011-03-31

Citation

Solution structure of the tandem HMG box domain from Human High mobility group protein B1
Tomizawa, T., Koshiba, S., Watanabe, S., Harada, T., Kigawa, T., Yokoyama, S.

Related entities 1. High mobility group protein B1, : 1 : 22 : 103 entities Detail

Interaction partners 1. High mobility group protein B1, : 59 interactors Detail

Experiments performed 2 experiments Detail