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Found 1 Document (1.576 seconds)

BMRB: 17166

2XKU

Prion-like conversion during amyloid formation at atomic resolution

Authors

Eichner, T., Kalverda, A.P., Thompson, G.S., Homans, S.W., Radford, S.E.

Assembly

dN6

Entity

1. dN6 (polymer, Thiol state: all free), 94 monomers, 11138.35 Da Detail

MIQVYSRHPA ENGKSNFLNC YVSGFHPSDI EVDLLKNGER IEKVEHSDLS FSKDWSFYLL YYTEFTPTEK DEYACRVNHV TLSQPKIVKW DRDM

Formula weight

11138.35 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

NONE

Data set

assigned_chemical_shifts, spectral_peak_list

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 94.7 %, Completeness (bb): 96.4 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	94.7 % (1081 of 1141)	95.1 % (565 of 594)	94.4 % (423 of 448)	93.9 % (93 of 99)
Backbone	96.4 % (536 of 556)	96.8 % (181 of 187)	96.4 % (269 of 279)	95.6 % (86 of 90)
Sidechain	93.6 % (633 of 676)	94.3 % (384 of 407)	93.1 % (242 of 260)	77.8 % (7 of 9)
Aromatic	84.1 % (116 of 138)	87.0 % (60 of 69)	80.6 % (54 of 67)	100.0 % (2 of 2)
Methyl	100.0 % (84 of 84)	100.0 % (42 of 42)	100.0 % (42 of 42)

1. dN6

MIQVYSRHPA ENGKSNFLNC YVSGFHPSDI EVDLLKNGER IEKVEHSDLS FSKDWSFYLL YYTEFTPTEK DEYACRVNHV TLSQPKIVKW DRDM

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

Sample #2

Solvent system 100% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details side chain assignment, 13C_noesy

#	Name	Isotope labeling	Concentration
6	dN6	[U-100% 13C; U-100% 15N]	1.0 (±1.0E-4) mM
7	sodium phosphate	natural abundance	25.0 (±0.0025) mM
8	sodium acide	natural abundance	1.0 (±1.0E-4) mM
9	D2O	natural abundance	100 %

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	0.101329

Referencing offset: -0.23 ppm, Outliers: 1 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	0.101329

Referencing offset: -0.23 ppm, Outliers: 1 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	0.101329

Referencing offset: -0.04 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	0.101329

Referencing offset: 0.66 ppm, Outliers: 1 Detail

Protein Blocks Logo

Calculated from 30 models in PDB: 2XKU, Strand ID: A Detail

Release date

2011-02-03

Citation 1

Conformational conversion during amyloid formation at atomic resolution
Eichner, T., Kalverda, A.P., Thompson, G.S., Homans, S.W., Radford, S.E.
Mol. Cell (2011), 41, 161-172, PubMed 21255727 , DOI 10.1016/j.molcel.2010.11.028 , Abstract

Show more 1 citaion

Citation 2

A generic mechanism of beta2-microglobulin amyloid assembly at neutral pH involving a specific proline switch
Eichner, T., Radford, S.E.
J. Mol. Biol. (2009), 386, 1312-1326, PubMed 19452600 , Abstract

Hide non-primary 1 citaion

Related entities 1. dN6, : 1 : 3 : 98 : 187 entities Detail

Interaction partners 1. dN6, : 121 interactors Detail

More details for 121 interactors identified by 43 citations

Experiments performed 19 experiments Detail

1 2D 1H-15N HSQC/HMQC

Instrument

Varian INOVA - 750 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

2 3D HNCA

Instrument

Varian INOVA - 750 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

3 3D HNCACB

Instrument

Varian INOVA - 750 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

4 CBCACONH (H[N[co[{CA|ca[C]}]]])

Instrument

Varian INOVA - 500 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

5 3D HN(CO)CA

Instrument

Varian INOVA - 500 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

6 3D HNCO

Instrument

Varian INOVA - 500 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

7 3D HCCH-TOCSY

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

8 3D HCCH-COSY

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

9 2D 1H-13C HSQC/HMQC

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

10 2D 1H-13C HSQC/HMQC

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

11 C_TOCSY (hC_CH.TOCSY)

Instrument

Varian INOVA - 500 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

12 3D HCCH-TOCSY

Instrument

Varian INOVA - 750 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

13 3D 1H-13C NOESY

Instrument

Varian INOVA - 750 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details side chain assignment, 13C_noesy

#	Name	Isotope labeling	Concentration
6	dN6	[U-100% 13C; U-100% 15N]	1.0 (±1.0E-4) mM
7	sodium phosphate	natural abundance	25.0 (±0.0025) mM
8	sodium acide	natural abundance	1.0 (±1.0E-4) mM
9	D2O	natural abundance	100 %

14 2D 1H-13C HSQC/HMQC

Instrument

Varian INOVA - 750 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

15 2D 1H-13C HSQC/HMQC

Instrument

Varian INOVA - 750 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details side chain assignment, 13C_noesy

#	Name	Isotope labeling	Concentration
6	dN6	[U-100% 13C; U-100% 15N]	1.0 (±1.0E-4) mM
7	sodium phosphate	natural abundance	25.0 (±0.0025) mM
8	sodium acide	natural abundance	1.0 (±1.0E-4) mM
9	D2O	natural abundance	100 %

16 3D 1H-13C NOESY

Instrument

Varian INOVA - 750 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details side chain assignment, 13C_noesy

#	Name	Isotope labeling	Concentration
6	dN6	[U-100% 13C; U-100% 15N]	1.0 (±1.0E-4) mM
7	sodium phosphate	natural abundance	25.0 (±0.0025) mM
8	sodium acide	natural abundance	1.0 (±1.0E-4) mM
9	D2O	natural abundance	100 %

17 3D 1H-15N NOESY

Instrument

Varian INOVA - 750 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details backbone assignment, 15N_noesy

#	Name	Isotope labeling	Concentration
1	dN6	[U-100% 13C; U-100% 15N]	0.5 (±5.0E-5) mM
2	sodium phosphate	natural abundance	25.0 (±0.0025) mM
3	sodium acide	natural abundance	1.0 (±1.0E-4) mM
4	H2O	natural abundance	90 %
5	D2O	natural abundance	10 %

18 15NNOESY_CORR

Instrument

Varian IVANOVA - 750 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details side chain assignment, 13C_noesy

#	Name	Isotope labeling	Concentration
6	dN6	[U-100% 13C; U-100% 15N]	1.0 (±1.0E-4) mM
7	sodium phosphate	natural abundance	25.0 (±0.0025) mM
8	sodium acide	natural abundance	1.0 (±1.0E-4) mM
9	D2O	natural abundance	100 %

19 HNCA

Instrument

Varian IVANOVA - 750 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1.000 (±0.100) atm, Temperature 298.000 (±1.000) K, pH 7.500 (±0.100), Details side chain assignment, 13C_noesy

#	Name	Isotope labeling	Concentration
6	dN6	[U-100% 13C; U-100% 15N]	1.0 (±1.0E-4) mM
7	sodium phosphate	natural abundance	25.0 (±0.0025) mM
8	sodium acide	natural abundance	1.0 (±1.0E-4) mM
9	D2O	natural abundance	100 %

nullKeywords amyloidosis, amyloid precursor, Ig-domain, IMMUNE SYSTEM, peptidyl prolyl isomerisation

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Found 1 Document (1.576 seconds)

BMRB: 17166

Sample #1

Sample #2

Chemical shift reference

Chemical shift reference

Chemical shift reference

Chemical shift reference

Related entities 1. dN6, : 1 : 3 : 98 : 187 entities Detail

Interaction partners 1. dN6, : 121 interactors Detail

Experiments performed 19 experiments Detail

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