BMRB: 11118

The solution structure of the fifth fibronectin type III domain of human Neogenin

Authors

Tochio, N., Sasagawa, A., Koshiba, S., Inoue, M., Kigawa, T., Yokoyama, S.

Assembly

Neogenin

Entity

1. Neogenin (polymer, Thiol state: not present), 113 monomers, 12327.77 Da Detail

GSSGSSGPMM PPVGVQASIL SHDTIRITWA DNSLPKHQKI TDSRYYTVRW KTNIPANTKY KNANATTLSY LVTGLKPNTL YEFSVMVTKG RRSSTWSMTA HGTTFELSGP SSG

Formula weight

12327.77 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 95.6 %, Completeness: 93.3 %, Completeness (bb): 92.0 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	93.3 % (1189 of 1275)	92.2 % (606 of 657)	95.0 % (476 of 501)	91.5 % (107 of 117)
Backbone	92.0 % (611 of 664)	90.4 % (206 of 228)	93.6 % (309 of 330)	90.6 % (96 of 106)
Sidechain	94.7 % (677 of 715)	93.2 % (400 of 429)	96.7 % (266 of 275)	100.0 % (11 of 11)
Aromatic	96.3 % (104 of 108)	96.3 % (52 of 54)	96.1 % (49 of 51)	100.0 % (3 of 3)
Methyl	95.6 % (109 of 114)	94.7 % (54 of 57)	96.5 % (55 of 57)

1. fn3 domain

GSSGSSGPMM PPVGVQASIL SHDTIRITWA DNSLPKHQKI TDSRYYTVRW KTNIPANTKY KNANATTLSY LVTGLKPNTL YEFSVMVTKG RRSSTWSMTA HGTTFELSGP SSG

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 1.3mM FN3 domain {U-15N,13C;} 20mM {d-Tris HCl;} 100mM {NaCl;} 1mM {d-DTT;} 0.02% {NaN3;} 10% D2O

#	Name	Isotope labeling	Type	Concentration
1	FN3 domain	[U-13C; U-15N]	protein	1.3 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: -0.07 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: -0.07 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: 0.02 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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LACS Plot; CO

Referencing offset: 0.71 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: 1X5J, Strand ID: A Detail

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Release date

2011-03-31

Citation

Leukocyte antigen-related protein tyrosine phosphatase receptor: a small ectodomain isoform functions as a homophilic ligand and promotes neurite outgrowth
Tochio, N., Sasagawa, A., Koshiba, S., Inoue, M., Kigawa, T., Yokoyama, S.
J. Neurosci. (2003), 23, 3353-3363, PubMed 12716943 , DOI: , Abstract

Related entities 1. Neogenin, : 1 : 19 : 86 entities Detail

Interaction partners 1. Neogenin, : 7 interactors Detail

Experiments performed 2 experiments Detail