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Found 1 Document (0.492 seconds)

BMRB: 36243

6JPD

Mouse receptor-interacting protein kinase 3 (RIP3) amyloid structure by solid-state NMR

Authors

Wu, X.L., Hu, H., Zhang, J., Dong, X.Q., Wang, J., Schwieters, C., Wang, H.Y., Lu, J.X.

Assembly

Receptor-interacting serine/threonine-protein kinase 3 (E.C.2.7.11.1)

Entity

1. Receptor-interacting serine/threonine-protein kinase 3 (E.C.2.7.11.1) (polymer, Thiol state: all free), 84 monomers, 9438.228 × 5 Da Detail

HHHHHHGPHP QRNQGDGRHG TPWYPWTPPN PMTGPPALVF NNCSEVQIGN YNSLVAPPRT TASSSAKYDQ AQFGRGRGWQ PFHK

Total weight

47191.137 Da

Max. entity weight

9438.228 Da

Source organism

Mus musculus

Exptl. method

NMR

Data set

assigned_chemical_shifts

Chemcal Shifts

¹³C: 90, ¹⁵N: 22 assignments Detail

ID	Entity ID	Seq ID	Comp ID	Atom ID	Atom type	Val	Val err	Ambig. code
1	1	39	VAL	C	C	173.1	0.2	1
2	1	39	VAL	CA	C	60.5	0.2	1
3	1	39	VAL	CB	C	35.1	0.2	1
4	1	39	VAL	CG1	C	20.7	0.2	2
5	1	39	VAL	CG2	C	20.7	0.2	2
6	1	39	VAL	N	N	121.9	0.3	1
7	1	40	PHE	C	C	174.1	0.2	1
8	1	40	PHE	CA	C	56	0.2	1
9	1	40	PHE	CB	C	41.2	0.5	1
10	1	40	PHE	CG	C	138.9	0.2	1
11	1	40	PHE	CD1	C	131.8	0.2	3
12	1	40	PHE	CD2	C	131.8	0.2	3
13	1	40	PHE	CE1	C	130.3	0.2	3
14	1	40	PHE	CE2	C	130.3	0.2	3
15	1	40	PHE	CZ	C	127.7	0.2	1
16	1	40	PHE	N	N	124.5	0.3	1
17	1	41	ASN	CA	C	54.2	0.2	1
18	1	41	ASN	N	N	125.6	0.3	1
19	1	42	ASN	C	C	173.1	0.2	1
20	1	42	ASN	CA	C	51.9	0.2	1
21	1	42	ASN	CB	C	40.8	0.2	1
22	1	42	ASN	N	N	120.5	0.3	1
23	1	43	CYS	C	C	178.1	0.2	1
24	1	43	CYS	CA	C	54.1	0.2	1
25	1	43	CYS	CB	C	36.2	0.2	1
26	1	43	CYS	N	N	120.9	0.3	1
27	1	44	SER	C	C	173.5	0.2	1
28	1	44	SER	CA	C	55.9	0.2	1
29	1	44	SER	CB	C	67.1	0.2	1
30	1	44	SER	N	N	113.1	0.3	1
31	1	45	GLU	C	C	173	0.2	1
32	1	45	GLU	CA	C	56.9	0.2	1
33	1	45	GLU	CB	C	25.5	0.2	1
34	1	45	GLU	CG	C	35.5	0.2	1
35	1	45	GLU	CD	C	181.5	0.2	1
36	1	45	GLU	N	N	117.1	0.3	1
37	1	46	VAL	C	C	174.5	0.2	1
38	1	46	VAL	CA	C	59.4	0.2	1
39	1	46	VAL	CB	C	35.3	0.2	1
40	1	46	VAL	CG1	C	20.7	0.2	2
41	1	46	VAL	CG2	C	20.7	0.2	2
42	1	46	VAL	N	N	120	0.3	1
43	1	47	GLN	C	C	175.3	0.2	1
44	1	47	GLN	CA	C	53	0.2	1
45	1	47	GLN	CB	C	33.1	0.2	1
46	1	47	GLN	CG	C	35.3	0.2	1
47	1	47	GLN	CD	C	177	0.2	1
48	1	47	GLN	N	N	122.8	0.3	1
49	1	47	GLN	NE2	N	111.4	0.2	1
50	1	48	ILE	C	C	173.8	0.2	1
51	1	48	ILE	CA	C	59.1	0.2	1
52	1	48	ILE	CB	C	39.3	0.2	1
53	1	48	ILE	CG1	C	26.9	0.2	1
54	1	48	ILE	CG2	C	16.7	0.2	1
55	1	48	ILE	CD1	C	13.8	0.2	1
56	1	48	ILE	N	N	123.5	0.3	1
57	1	49	GLY	C	C	170.6	0.2	1
58	1	49	GLY	CA	C	43.9	0.2	1
59	1	49	GLY	N	N	115	0.2	1
60	1	50	ASN	C	C	174.4	0.2	1
61	1	50	ASN	CA	C	50.6	0.2	1
62	1	50	ASN	CB	C	42.2	0.2	1
63	1	50	ASN	CG	C	176.7	0.2	1
64	1	50	ASN	N	N	116.5	0.3	1
65	1	50	ASN	ND2	N	111.2	0.3	1
66	1	51	TYR	C	C	175.3	0.2	1
67	1	51	TYR	CA	C	58.4	0.2	1
68	1	51	TYR	CB	C	35.2	0.2	1
69	1	51	TYR	CD1	C	133.5	0.2	3
70	1	51	TYR	CD2	C	133.5	0.2	3
71	1	51	TYR	CE1	C	117	0.2	3
72	1	51	TYR	CE2	C	117	0.2	3
73	1	51	TYR	CZ	C	156.5	0.2	1
74	1	51	TYR	N	N	111.4	0.3	1
75	1	52	ASN	C	C	175.4	0.2	1
76	1	52	ASN	CA	C	52.8	0.2	1
77	1	52	ASN	CB	C	39.3	0.2	1
78	1	52	ASN	CG	C	177	0.2	1
79	1	52	ASN	N	N	117	0.3	1
80	1	52	ASN	ND2	N	109.3	0.3	1
81	1	53	SER	C	C	172.4	0.2	1
82	1	53	SER	CA	C	56.7	0.2	1
83	1	53	SER	CB	C	65.1	0.2	1
84	1	53	SER	N	N	113.9	0.3	1
85	1	54	LEU	C	C	175	0.2	1
86	1	54	LEU	CA	C	55	0.2	1
87	1	54	LEU	CB	C	44.2	0.2	1
88	1	54	LEU	CG	C	28.7	0.2	1
89	1	54	LEU	CD1	C	25.9	0.2	1
90	1	54	LEU	CD2	C	23.3	0.2	1
91	1	54	LEU	N	N	134	0.3	1
92	1	55	VAL	CA	C	60.5	0.2	1
93	1	55	VAL	CB	C	33.3	0.2	1
94	1	55	VAL	CG1	C	20.9	0.2	1
95	1	55	VAL	CG2	C	20.2	0.2	1
96	1	55	VAL	N	N	125.4	0.3	1
97	1	56	ALA	CA	C	52.1	0.2	1
98	1	56	ALA	CB	C	19.3	0.2	1
99	1	56	ALA	N	N	124.6	0.3	1
100	1	57	PRO	CA	C	61	0.2	1
101	1	57	PRO	CB	C	31.7	0.2	1
102	1	57	PRO	CG	C	26.9	0.2	1
103	1	57	PRO	CD	C	49.8	0.2	1
104	1	58	PRO	CA	C	62.3	0.2	1
105	1	58	PRO	CB	C	31.7	0.2	1
106	1	58	PRO	CG	C	27	0.2	1
107	1	58	PRO	CD	C	49.9	0.2	1
108	1	59	ARG	CA	C	57.3	0.2	1
109	1	59	ARG	CB	C	31.7	0.2	1
110	1	59	ARG	CG	C	27.1	0.2	1
111	1	59	ARG	CD	C	43.2	0.2	1
112	1	59	ARG	N	N	111.8	0.3	1

Release date

2019-06-02

Citation

The amyloid structure of mouse RIPK3 (receptor interacting protein kinase 3) in cell necroptosis
Wu, X.L., Hu, H., Dong, X.Q., Zhang, J., Wang, J., Schwieters, C.D., Liu, J.X., Wu, G.X., Li, B., Lin, J.Y., Wang, H.Y., Lu, J.X.
Nat. Commun. (2021), 12, 1627-1627, PubMed 33712586 , DOI 10.1038/s41467-021-21881-2 , Abstract

Related entities 1. Receptor-interacting serine/threonine-protein kinase 3 (E.C.2.7.11.1), : 1 : 2 : 6 entities Detail

Interaction partners 1. Receptor-interacting serine/threonine-protein kinase 3 (E.C.2.7.11.1), : 8 interactors Detail

More details for 8 interactors identified by 5 citations

Experiments performed 22 experiments Detail

1 2D CC DARR

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL [U-99% 13C; U-99% 15N] mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
1	mouse rip3 fibril	[U-99% 13C; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
2	H2O	natural abundance	solvent	100 %

2 2D NCaCX

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL [U-99% 13C; U-99% 15N] mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
1	mouse rip3 fibril	[U-99% 13C; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
2	H2O	natural abundance	solvent	100 %

3 2D NCoCX

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL [U-99% 13C; U-99% 15N] mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
1	mouse rip3 fibril	[U-99% 13C; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
2	H2O	natural abundance	solvent	100 %

4 3D NCACX

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL [U-99% 13C; U-99% 15N] mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
1	mouse rip3 fibril	[U-99% 13C; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
2	H2O	natural abundance	solvent	100 %

5 3D NCOCX

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL [U-99% 13C; U-99% 15N] mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
1	mouse rip3 fibril	[U-99% 13C; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
2	H2O	natural abundance	solvent	100 %

6 2D CC DARR

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL [U-50% 13C; natural abundance N][natural abundance C13, U-50% N15] mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
7	mouse rip3 fibril	[U-50% 13C; natural abundance N][natural abundance C13, U-50% N15]	protein	0.95 ~ 1.05 mg/mL
8	H2O	natural abundance	solvent	100 %

7 2D NC TEDOR

Instrument

Bruker Avance - 700 MHz 268K

Sample

#	Name	Isotope labeling	Type	Concentration
7	mouse rip3 fibril	[U-50% 13C; natural abundance N][natural abundance C13, U-50% N15]	protein	0.95 ~ 1.05 mg/mL
8	H2O	natural abundance	solvent	100 %

8 2D NCoCX

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL 99% 1,3-13C Glycerol; 99% 15N mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
5	mouse rip3 fibril	[99% 1,3-13C Glycerol; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
6	H2O	natural abundance	solvent	100 %

9 2D NCaCX

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL 99% 1,3-13C Glycerol; 99% 15N mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
5	mouse rip3 fibril	[99% 1,3-13C Glycerol; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
6	H2O	natural abundance	solvent	100 %

10 2D CC DARR

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL 99% 1,3-13C Glycerol; 99% 15N mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
5	mouse rip3 fibril	[99% 1,3-13C Glycerol; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
6	H2O	natural abundance	solvent	100 %

11 2D NCoCX

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL 99% 2-13C Glycerol; U-99% 15N mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
3	mouse rip3 fibril	[99% 2-13C Glycerol, U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
4	H2O	natural abundance	solvent	100 %

12 2D NCaCX

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL 99% 2-13C Glycerol; U-99% 15N mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
3	mouse rip3 fibril	[99% 2-13C Glycerol, U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
4	H2O	natural abundance	solvent	100 %

13 2D CC DARR

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL 99% 2-13C Glycerol; U-99% 15N mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
3	mouse rip3 fibril	[99% 2-13C Glycerol, U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
4	H2O	natural abundance	solvent	100 %

14 2D NC TEDOR

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL 99% 2-13C Glycerol; U-99% 15N mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
3	mouse rip3 fibril	[99% 2-13C Glycerol, U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
4	H2O	natural abundance	solvent	100 %

15 2D NC TEDOR

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL [U-99% 13C; U-99% 15N] mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
1	mouse rip3 fibril	[U-99% 13C; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
2	H2O	natural abundance	solvent	100 %

16 2D NC TEDOR

Instrument

Bruker Avance - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL 99% 1,3-13C Glycerol; 99% 15N mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
5	mouse rip3 fibril	[99% 1,3-13C Glycerol; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
6	H2O	natural abundance	solvent	100 %

17 2D ChhC

Instrument

Bruker Avance - 700 MHz 268K

Sample

#	Name	Isotope labeling	Type	Concentration
7	mouse rip3 fibril	[U-50% 13C; natural abundance N][natural abundance C13, U-50% N15]	protein	0.95 ~ 1.05 mg/mL
8	H2O	natural abundance	solvent	100 %

18 2D NCaCX

Instrument

Agilent DD2 - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL [U-99% 13C; U-99% 15N] mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
1	mouse rip3 fibril	[U-99% 13C; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
2	H2O	natural abundance	solvent	100 %

19 2D CC DARR

Instrument

Agilent DD2 - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL [U-99% 13C; U-99% 15N] mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
1	mouse rip3 fibril	[U-99% 13C; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
2	H2O	natural abundance	solvent	100 %

20 2D NCoCX

Instrument

Agilent DD2 - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL [U-99% 13C; U-99% 15N] mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
1	mouse rip3 fibril	[U-99% 13C; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
2	H2O	natural abundance	solvent	100 %

21 3D NCACX

Instrument

Agilent DD2 - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL [U-99% 13C; U-99% 15N] mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
1	mouse rip3 fibril	[U-99% 13C; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
2	H2O	natural abundance	solvent	100 %

22 3D NCOCX

Instrument

Agilent DD2 - 700 MHz 303K

Sample

State anisotropic, Solvent system H2O, Pressure 1 atm, Temperature 298 K, pH 7.5, Details 1 mg/mL [U-99% 13C; U-99% 15N] mouse rip3 fibril, H2O

#	Name	Isotope labeling	Type	Concentration
1	mouse rip3 fibril	[U-99% 13C; U-99% 15N]	protein	0.95 ~ 1.05 mg/mL
2	H2O	natural abundance	solvent	100 %

Chemical shift validation 3 contents Detail

Properties

Input source #1: Assigned chemical shifts - Assigned chemical shifts	bmr36243_3.str
Diamagnetism of the molecular assembly	True (excluding Oxygen atoms)
Whether the assembly has a disulfide bond	None
Whether the assembly has a other bond	None
Whether the assembly contains a cyclic polymer	None
Overall data processing status	Warning

Disulfide bonds

None

Other bonds (neither disulfide, covalent nor hydrogen bonds, e.g. Zinc–sulphur bond)

None

Non-standard residues

None

Content subtype: bmr36243_3.str

#	Content subtype	Saveframe	Status	# of rows	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chemical_shifts_1	Warning	112		25.0 (chain: 1, length: 84)
1	Chemical shift references	chem_shift_reference_1	OK	2		No information

Assigned chemical shifts

Saveframe: assigned_chemical_shifts_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: 1, Chain length: 84, Sequence coverage: 25.0%
- Total number of assignments
  - ¹³C chemical shifts: 90
  - ¹⁵N chemical shifts: 22
- Completeness of assignments
- Redox state of CYS
- Peptide bond of PRO
- Rotameric state of ILE , LEU, and VAL
- Histogram of normalized assigned chemical shifts
- Random coil index and derived parameters (S² and NMR RMSD)
  - Chain_ID: 1

Keywords PROTEIN FIBRIL, amyloid, programmed necrosis

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Found 1 Document (0.492 seconds)

BMRB: 36243

Related entities 1. Receptor-interacting serine/threonine-protein kinase 3 (E.C.2.7.11.1), : 1 : 2 : 6 entities Detail

Interaction partners 1. Receptor-interacting serine/threonine-protein kinase 3 (E.C.2.7.11.1), : 8 interactors Detail

Experiments performed 22 experiments Detail

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Chemical shift validation 3 contents Detail