BMRB: 11099

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

Authors

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

Assembly

Netrin receptor DCC

Entity

1. Netrin receptor DCC (polymer, Thiol state: all free), 116 monomers, 12464.56 Da Detail

GSSGSSGPEN DLDESQVPDQ PSSLHVRPQT NCIIMSWTPP LNPNIVVRGY IIGYGVGSPY AETVRVDSKQ RYYSIERLES SSHYVISLKA FNNAGEGVPL YESATTRSIT SGPSSG

Formula weight

12464.56 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 94.8 %, Completeness: 93.6 %, Completeness (bb): 92.9 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	93.6 % (1191 of 1273)	92.1 % (608 of 660)	95.2 % (472 of 496)	94.9 % (111 of 117)
Backbone	92.9 % (628 of 676)	91.4 % (213 of 233)	93.5 % (315 of 337)	94.3 % (100 of 106)
Sidechain	94.6 % (664 of 702)	92.5 % (395 of 427)	97.7 % (258 of 264)	100.0 % (11 of 11)
Aromatic	95.3 % (82 of 86)	95.3 % (41 of 43)	95.2 % (40 of 42)	100.0 % (1 of 1)
Methyl	100.0 % (112 of 112)	100.0 % (56 of 56)	100.0 % (56 of 56)

1. fourth fn3 domain

GSSGSSGPEN DLDESQVPDQ PSSLHVRPQT NCIIMSWTPP LNPNIVVRGY IIGYGVGSPY AETVRVDSKQ RYYSIERLES SSHYVISLKA FNNAGEGVPL YESATTRSIT 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; 90% H2O, 10% D2O

#	Name	Isotope labeling	Type	Concentration
1	fourth fn3 domain	[U-13C; U-15N]	protein	1.2 mM
2	d-Tris-HCl	[U-2H]	buffer	20 mM
3	sodium chloride	natural abundance	salt	100 mM
4	d-DTT	[U-2H]	salt	1 mM
5	sodium azide	natural abundance	salt	0.02 %
6	H2O		solvent	90 %
7	D2O		solvent	10 %

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LACS Plot; CA

Referencing offset: -0.21 ppm, Outliers: 3 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: -0.21 ppm, Outliers: 3 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: 0.0 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: 0.45 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: 2EDB, Strand ID: A Detail

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Release date

2011-02-16

Citation

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

Related entities 1. Netrin receptor DCC, : 1 : 8 : 138 entities Detail

Interaction partners 1. Netrin receptor DCC, : 11 interactors Detail

Experiments performed 2 experiments Detail