BMRB: 11138

Solution structure of the 13th 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), 97 monomers, 10594.59 Da Detail

GSSGSSGEQE DRALRSFKLS VTVDPKYHPK IIGRKGAVIT QIRLEHDVNI QFPDKDDGNQ PQDQITITGY EKNTEAARDA ILRIVGELEQ MSGPSSG

Formula weight

10594.59 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: 93.8 %, Completeness: 93.2 %, Completeness (bb): 92.3 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	93.2 % (1018 of 1092)	92.0 % (528 of 574)	95.2 % (396 of 416)	92.2 % (94 of 102)
Backbone	92.3 % (528 of 572)	91.0 % (181 of 199)	93.6 % (263 of 281)	91.3 % (84 of 92)
Sidechain	94.4 % (573 of 607)	92.5 % (347 of 375)	97.3 % (216 of 222)	100.0 % (10 of 10)
Aromatic	100.0 % (44 of 44)	100.0 % (22 of 22)	100.0 % (22 of 22)
Methyl	100.0 % (96 of 96)	100.0 % (48 of 48)	100.0 % (48 of 48)

1. KH domain

GSSGSSGEQE DRALRSFKLS VTVDPKYHPK IIGRKGAVIT QIRLEHDVNI QFPDKDDGNQ PQDQITITGY EKNTEAARDA ILRIVGELEQ MSGPSSG

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 1.38mM KH domain U-15N, {13C;} 20mM d-Tris-HCl(pH {7.0);} 100mM {NaCl;} 1mM {d-DTT;} 0.02% {NaN3;} 10% D2O

#	Name	Isotope labeling	Type	Concentration
1	KH domain	[U-13C; U-15N]	protein	1.38 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: 2.22 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: 2.22 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: 0.08 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: 2.3 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: 2CTL, Strand ID: A Detail

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Release date

2011-03-31

Citation

Solution structure of the 13th KH type I domain from human Vigilin
Tomizawa, T., Kigawa, T., Koshiba, S., Inoue, M., Yokoyama, S.

Related entities 1. Vigilin, : 1 : 3 : 61 entities Detail

Interaction partners 1. Vigilin, : 64 interactors Detail

Experiments performed 2 experiments Detail