BMRB: 11128

Solution structure of the 3rd fibronectin type III domain from mouse biregional cell adhesion molecule-related/down-regulated oncogenes (Cdon) binding protein

Authors

Tomizawa, T., Kigawa, T., Koshiba, S., Inoue, M., Yokoyama, S.

Assembly

biregional cell adhesion molecule-related/down-regulated oncogenes (Cdon)binding protein

Entity

1. biregional cell adhesion molecule-related/down-regulated oncogenes (Cdon)binding protein (polymer, Thiol state: all free), 114 monomers, 12724.82 Da Detail

GSSGSSGPVA GPYITFTDAV NETTIMLKWM YIPASNNNTP IHGFYIYYRP TDSDNDSDYK KDMVEGDRYW HSISHLQPET SYDIKMQCFN EGGESEFSNV MICETKARSG PSSG

Formula weight

12724.82 Da

Source organism

Mus musculus

Exptl. method

solution NMR

Refine. method

torsion angle dynamics, restrainted molecular dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 97.6 %, Completeness (bb): 97.5 % Detail

Download

• NMR-STAR v3.1 (partial)
• BMRB/XML (partial)
• CSV
• TSV

Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	97.6 % (1250 of 1281)	97.4 % (646 of 663)	98.2 % (491 of 500)	95.8 % (113 of 118)
Backbone	97.5 % (653 of 670)	97.4 % (225 of 231)	97.9 % (325 of 332)	96.3 % (103 of 107)
Sidechain	98.0 % (701 of 715)	97.5 % (421 of 432)	99.3 % (270 of 272)	90.9 % (10 of 11)
Aromatic	98.6 % (138 of 140)	100.0 % (70 of 70)	97.1 % (66 of 68)	100.0 % (2 of 2)
Methyl	100.0 % (80 of 80)	100.0 % (40 of 40)	100.0 % (40 of 40)

1. fibronectin type III (fn3) domain

GSSGSSGPVA GPYITFTDAV NETTIMLKWM YIPASNNNTP IHGFYIYYRP TDSDNDSDYK KDMVEGDRYW HSISHLQPET SYDIKMQCFN EGGESEFSNV MICETKARSG PSSG

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 1.84mM 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	1.84 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 %

Hide sample codition

LACS Plot; CA

Referencing offset: 2.35 ppm, Outliers: 2 Detail

Show chemical shift referencing parameters

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

Hide chemical shift referencing parameters

LACS Plot; CB

Referencing offset: 2.35 ppm, Outliers: 2 Detail

Show chemical shift referencing parameters

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

Hide chemical shift referencing parameters

LACS Plot; HA

Referencing offset: 0.08 ppm, Outliers: 2 Detail

Show chemical shift referencing parameters

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

Hide chemical shift referencing parameters

LACS Plot; CO

Referencing offset: 2.83 ppm, Outliers: 3 Detail

Show chemical shift referencing parameters

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

Hide chemical shift referencing parameters

Protein Blocks Logo

Calculated from 20 models in PDB: 1X4Y, Strand ID: A Detail

---

Release date

2011-03-31

Citation

Solution structure of the 3rd fibronectin type III domain from mouse biregional cell adhesion molecule-related/down-regulated oncogenes (Cdon) binding protein
Tomizawa, T., Kigawa, T., Koshiba, S., Inoue, M., Yokoyama, S.

Related entities 1. biregional cell adhesion molecule-related/down-regulated oncogenes (Cdon)binding protein, : 1 : 305 entities Detail

Interaction partners 1. biregional cell adhesion molecule-related/down-regulated oncogenes (Cdon)binding protein, : 6 interactors Detail

Experiments performed 2 experiments Detail