BMRB: 11242

Solution structure of the first SH3 domain of human vinexin

Authors

Zhang, H., Izumi, K., Yoshida, M., Hayashi, F., Yokoyama, S.

Assembly

Vinexin

Entity

1. Vinexin (polymer, Thiol state: not present), 68 monomers, 7370.124 Da Detail

GSSGSSGKAA RLKFDFQAQS PKELTLQKGD IVYIHKEVDK NWLEGEHHGR LGIFPANYVE VLSGPSSG

Formula weight

7370.124 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 92.6 %, Completeness: 91.6 %, Completeness (bb): 89.6 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	91.6 % (713 of 778)	90.6 % (368 of 406)	93.0 % (280 of 301)	91.5 % (65 of 71)
Backbone	89.6 % (360 of 402)	88.7 % (126 of 142)	89.7 % (175 of 195)	90.8 % (59 of 65)
Sidechain	94.0 % (409 of 435)	91.7 % (242 of 264)	97.6 % (161 of 165)	100.0 % (6 of 6)
Aromatic	97.1 % (68 of 70)	97.1 % (34 of 35)	97.1 % (33 of 34)	100.0 % (1 of 1)
Methyl	98.4 % (61 of 62)	96.8 % (30 of 31)	100.0 % (31 of 31)

1. SH3 domain, residues 8-62

GSSGSSGKAA RLKFDFQAQS PKELTLQKGD IVYIHKEVDK NWLEGEHHGR LGIFPANYVE VLSGPSSG

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Sample

Solvent system 90% H2O/10% D2O, Pressure 1 (±0.001) atm, Temperature 298 (±0.1) K, pH 7.0 (±0.05), Details 0.89mM 13C, 15N-labeled {protein;} 20mM {d-Tris-HCl(pH7.0);} 100mM {NaCl;} 1mM {d-DTT;} 0.02% {NaN3;} 90% H2O, 10% D2O

#	Name	Isotope labeling	Type	Concentration
1	SH3 domain, residues 8-62	[U-13C; U-15N]	protein	0.89 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: 2.79 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: 2.79 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: 3.15 ppm, Outliers: 4 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: 2DLM, Strand ID: A Detail

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Release date

2011-08-02

Citation

Solution structure of the first SH3 domain of human vinexin and its interaction with vinculin peptides
Zhang, H., Izumi, K., Yoshida, M., Hayashi, F., Yokoyama, S.
Biochem. Biophys. Res. Commun. (2007), 357, 931-937, PubMed 17467669 , DOI 10.1016/j.bbrc.2007.04.029 , Abstract

Related entities 1. Vinexin, : 1 : 4 : 147 entities Detail

Interaction partners 1. Vinexin, : 62 interactors Detail

Experiments performed 2 experiments Detail