BMRB: 11103

Solution structure of the second fibronectin type III domain of human Netrin receptor DCC

Authors

Tochio, N., Koshiba, S., Tomizawa, T., Kigawa, T., Yokoyama, S.

Assembly

Netrin receptor DCC

Entity

1. Netrin receptor DCC (polymer, Thiol state: all free), 106 monomers, 11197.22 Da Detail

GSSGSSGPGP VENLQAVSTS PTSILITWEP PAYANGPVQG YRLFCTEVST GKEQNIEVDG LSYKLEGLKK FTEYSLRFLA YNRYGPGVST DDITVVTLSD SGPSSG

Formula weight

11197.22 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 96.2 %, Completeness: 95.3 %, Completeness (bb): 93.9 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	95.3 % (1104 of 1159)	94.8 % (565 of 596)	96.3 % (440 of 457)	93.4 % (99 of 106)
Backbone	93.9 % (582 of 620)	92.2 % (200 of 217)	95.1 % (290 of 305)	93.9 % (92 of 98)
Sidechain	97.2 % (614 of 632)	96.3 % (365 of 379)	98.8 % (242 of 245)	87.5 % (7 of 8)
Aromatic	93.3 % (84 of 90)	93.3 % (42 of 45)	95.5 % (42 of 44)	0.0 % (0 of 1)
Methyl	98.2 % (108 of 110)	96.4 % (53 of 55)	100.0 % (55 of 55)

1. second fn3 domain, Fibronectin type-III 2

GSSGSSGPGP VENLQAVSTS PTSILITWEP PAYANGPVQG YRLFCTEVST GKEQNIEVDG LSYKLEGLKK FTEYSLRFLA YNRYGPGVST DDITVVTLSD SGPSSG

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 1.2mM sample [U-15N,13C], 20mM d-Tris-HCl, 100mM NaCl, 1mM d-DTT, 0.02% NaN3, 10% D2O, 90% H2O

#	Name	Isotope labeling	Type	Concentration
1	second fn3 domain, Fibronectin type-III 2	[U-13C; U-15N]	protein	1.2 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: -0.05 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; CB

Referencing offset: -0.05 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: -0.05 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: 0.65 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: 2ED8, Strand ID: A Detail

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Release date

2011-02-16

Citation

Solution structure of the second fibronectin type III domain of human Netrin receptor DCC
Tochio, N., Koshiba, S., Tomizawa, T., Kigawa, T., Yokoyama, S.

Related entities 1. Netrin receptor DCC, : 1 : 2 : 521 entities Detail

Interaction partners 1. Netrin receptor DCC, : 24 interactors Detail

Experiments performed 2 experiments Detail