BMRBj - BMREntryMaster

Found 1 Document (0.51 seconds)

BMRB: 34146

5O57

Solution Structure of the N-terminal Region of Dkk4

Authors

Waters, L.C., Patel, S., Barkell, A.M., Muskett, F.W., Robinson, M.K., Holdsworth, G., Carr, M.D.

Assembly

Dickkopf-related protein 4

Entity

1. Dickkopf-related protein 4 (polymer), 95 monomers, 10912.27 Da Detail

MLVLDFNNIR SSADLHGARK GSQCLSDTDC NTRKFCLQPR DEKPFCATCR GLRRRCQRDA MCCPGTLCVN DVCTTMEDAT ENLYFQSLEH HHHHH

Formula weight

10912.27 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 89.5 %, Completeness: 78.7 %, Completeness (bb): 84.4 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	78.7 % (840 of 1067)	79.5 % (443 of 557)	77.3 % (316 of 409)	80.2 % (81 of 101)
Backbone	84.4 % (476 of 564)	84.3 % (161 of 191)	83.6 % (235 of 281)	87.0 % (80 of 92)
Sidechain	74.2 % (441 of 594)	77.0 % (282 of 366)	72.1 % (158 of 219)	11.1 % (1 of 9)
Aromatic	30.3 % (23 of 76)	60.5 % (23 of 38)	0.0 % (0 of 38)
Methyl	93.4 % (71 of 76)	94.7 % (36 of 38)	92.1 % (35 of 38)

1. Dickkopf-related protein 4

MLVLDFNNIR SSADLHGARK GSQCLSDTDC NTRKFCLQPR DEKPFCATCR GLRRRCQRDA MCCPGTLCVN DVCTTMEDAT ENLYFQSLEH HHHHH

Show sample condition

Sample #1

Solvent system 95% H2O/5% D2ODkk4n, Pressure 1 atm, Temperature 308 K, pH 6.5, Details 140 uM [U-13C; U-15N] Dkk4n, 95% H2O/5% D2ODkk4n

#	Name	Isotope labeling	Concentration
1	Dkk4n	[U-13C; U-15N]	140 uM
2	Sodium Phosphate	natural abundance	25 mM
3	NaCl	natural abundance	100 mM
4	Sodium Azide	natural abundance	.02 %

Sample #2

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 308 K, pH 6.5, Details 210 uM [U-15N] Dkk4n, 95% H2O/5% D2O

#	Name	Isotope labeling	Concentration
5	Dkk4n	[U-15N]	210 uM
6	Sodium Phosphate	natural abundance	25 mM
7	NaCl	natural abundance	100 mM
8	Sodium Azide	natural abundance	.02 %

Sample #3

Solvent system 100% D2O, Pressure 1 atm, Temperature 308 K, pH 6.5, Details 90 uM [U-15N] Dkk4n, 100% D2O

#	Name	Isotope labeling	Concentration
9	Dkk4n	[U-15N]	90 uM
10	Sodium Phosphate	natural abundance	25 mM
11	NaCl	natural abundance	100 mM
12	Sodium Azide	natural abundance	.02 %

Sample #4

Solvent system 100% D2O, Pressure 1 atm, Temperature 308 K, pH 6.5, Details 140 uM [U-13C; U-15N] Dkk4n, 100% D2O

#	Name	Isotope labeling	Concentration
13	Dkk4n	[U-13C; U-15N]	140 uM
14	Sodium Phosphate	natural abundance	25 mM
15	NaCl	natural abundance	100 mM
16	Sodium Azide	natural abundance	.02 %

Sample #5

Solvent system 100% D2O, Pressure 1 atm, Temperature 308 K, pH 6.5, Details 230 uM [U-13C; U-15N] Dkk4n, 100% D2O

#	Name	Isotope labeling	Concentration
17	Dkk4n	[U-13C; U-15N]	230 uM
18	Sodium Phosphate	natural abundance	25 mM
19	NaCl	natural abundance	100 mM
20	Sodium Azide	natural abundance	.02 %

LACS Plot; CA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	internal	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	internal	indirect	0.1013291

Referencing offset: -0.26 ppm, Outliers: 3 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	internal	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	internal	indirect	0.1013291

Referencing offset: -0.26 ppm, Outliers: 3 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	internal	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	internal	indirect	0.1013291

Referencing offset: 0.08 ppm, Outliers: 1 Detail

LACS Plot; CO

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	internal	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	internal	indirect	0.1013291

Referencing offset: 0.56 ppm, Outliers: 1 Detail

Release date

2017-06-14

Citation

Structural and functional analysis of Dickkopf 4 (Dkk4): new insights into Dkk evolution and regulation of Wnt signalling by Dkk and Kremen proteins
Patel, S., Barkell, A.M., Gupta, D., Strong, S.L., Bruton, S., Muskett, F.W., Addis, P.W., Renshaw, P.S., Slocombe, P.M., Doyle, C., Cargo, A., Taylor, R.J., Prosser, C.E., Henry, A.J., Robinson, M.K., Waters, L.C., Holdsworth, G., Carr, M.D.
J. Biol. Chem. (2018), 293, 12149-12166, PubMed 29925589 , DOI 10.1074/jbc.RA118.002918 , Abstract

Related entities 1. Dickkopf-related protein 4, : 1 : 2 : 9 entities Detail

Experiments performed 11 experiments Detail

1 3D TROSY-HNCACB