BMRB: 11139

Solution structure of the 1st KH type I domain from human Vigilin

Authors

Tomizawa, T., Kigawa, T., Koshiba, S., Inoue, M., Yokoyama, S.

Assembly

Vigilin

Entity

1. Vigilin (polymer, Thiol state: not present), 94 monomers, 10055.16 Da Detail

GSSGSSGDIV ARLQTQASAT VAIPKEHHRF VIGKNGEKLQ DLELKTATKI QIPRPDDPSN QIKITGTKEG IEKARHEVLL ISAEQDKRSG PSSG

Formula weight

10055.16 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: 96.8 %, Completeness: 96.5 %, Completeness (bb): 95.3 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	96.5 % (1019 of 1056)	96.4 % (536 of 556)	97.3 % (392 of 403)	93.8 % (91 of 97)
Backbone	95.3 % (528 of 554)	95.3 % (183 of 192)	96.0 % (262 of 273)	93.3 % (83 of 89)
Sidechain	97.6 % (573 of 587)	97.0 % (353 of 364)	98.6 % (212 of 215)	100.0 % (8 of 8)
Aromatic	100.0 % (22 of 22)	100.0 % (11 of 11)	100.0 % (11 of 11)
Methyl	100.0 % (102 of 102)	100.0 % (51 of 51)	100.0 % (51 of 51)

1. KH domain

GSSGSSGDIV ARLQTQASAT VAIPKEHHRF VIGKNGEKLQ DLELKTATKI QIPRPDDPSN QIKITGTKEG IEKARHEVLL ISAEQDKRSG PSSG

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 1.05mM KH domain {U-15N,13C;} 20mM {d-Tris-HCl;} 100mM {NaCl;} 1mM {d-DTT;} 0.02% {NaN3;} 90% H2O, 10% D2O

#	Name	Isotope labeling	Type	Concentration
1	KH domain	[U-13C; U-15N]	protein	1.05 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: 2.15 ppm, Outliers: 2 Detail

Show chemical shift referencing parameters

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: 2.15 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; HA

Referencing offset: 0.08 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: 2.27 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: 2CTE, Strand ID: A Detail

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Release date

2011-03-31

Citation

Solution structure of the 1st KH type I domain from human Vigilin
Tomizawa, T., Kigawa, T., Koshiba, S., Inoue, M., Yokoyama, S.

Related entities 1. Vigilin, : 1 : 92 entities Detail

Interaction partners 1. Vigilin, : 64 interactors Detail

Experiments performed 2 experiments Detail