BMRB: 11150

Solution structure of the Somatomedin B domain of human Ectonucleotide pyrophosphatase/phosphodiesterase family member

Authors

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

Assembly

Ectonucleotide pyrophosphatase/phosphodiesterase family member 1

Entity

1. Ectonucleotide pyrophosphatase/phosphodiesterase family member 1 (polymer, Thiol state: all free), 56 monomers, 5834.350 Da Detail

GSSGSSGWTC NKFRCGEKRL TRSLCACSDD CKDQGDCCIN YSSVCQGEKS SGPSSG

Formula weight

5834.35 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 80.4 %, Completeness: 81.0 %, Completeness (bb): 76.0 % Detail

Download

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

Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	81.0 % (461 of 569)	81.2 % (242 of 298)	82.0 % (173 of 211)	76.7 % (46 of 60)
Backbone	76.0 % (254 of 334)	73.9 % (88 of 119)	78.1 % (125 of 160)	74.5 % (41 of 55)
Sidechain	86.9 % (246 of 283)	86.0 % (154 of 179)	87.9 % (87 of 99)	100.0 % (5 of 5)
Aromatic	100.0 % (30 of 30)	100.0 % (15 of 15)	100.0 % (14 of 14)	100.0 % (1 of 1)
Methyl	100.0 % (22 of 22)	100.0 % (11 of 11)	100.0 % (11 of 11)

1. somatomedin B

GSSGSSGWTC NKFRCGEKRL TRSLCACSDD CKDQGDCCIN YSSVCQGEKS 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 0.80mM 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	somatomedin B	[U-13C; U-15N]	protein	0.80 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: 0.47 ppm, Outliers: 1 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: 0.47 ppm, Outliers: 1 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: 0.04 ppm, Outliers: 1 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: -0.24 ppm, Outliers: 1 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: 2YS0, Strand ID: A Detail

---

Release date

2011-05-04

Citation

Solution structure of the Somatomedin B domain of human Ectonucleotide pyrophosphatase/phosphodiesterase family member
Abe, H., Sasagawa, A., Tochio, N., Tomizawa, T., Koshiba, S., Inoue, M., Kigawa, T., Yokoyama, S.

Related entities 1. Ectonucleotide pyrophosphatase/phosphodiesterase family member 1, : 1 : 6 entities Detail

Experiments performed 2 experiments Detail