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BMRB: 27305

6DRF

Chemical Shift Assignments of Retinal Degeneration 3 Protein (RD3)

Authors

Ames, J.B., Lim, S.

Assembly

RD3 monomer

Entity

1. RD3 monomer (polymer, Thiol state: all free), 143 monomers, 16581.61 Da Detail

ARSPAEMVLE TLMMELTGQM REAERQQRER SNAVRKVCTG VDYSWLASTP DSTYDLSPIE RLQLEDVCVK IHPSYCGPAI LRFRQLLAEQ EPEVQEVSQL FRSVLQEVLE RMKQEEEAHK LTRQWSLRPR GSLATFETEA EID

Formula weight

16581.61 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

DGSA-distance geometry simulated annealing

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 99.3 %, Completeness: 83.1 %, Completeness (bb): 92.1 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	83.1 % (1401 of 1686)	83.9 % (744 of 887)	79.4 % (515 of 649)	94.7 % (142 of 150)
Backbone	92.1 % (777 of 844)	91.5 % (259 of 283)	91.3 % (388 of 425)	95.6 % (130 of 136)
Sidechain	76.6 % (751 of 981)	80.3 % (485 of 604)	70.0 % (254 of 363)	85.7 % (12 of 14)
Aromatic	48.8 % (42 of 86)	83.7 % (36 of 43)	9.8 % (4 of 41)	100.0 % (2 of 2)
Methyl	98.7 % (154 of 156)	100.0 % (78 of 78)	97.4 % (76 of 78)

1. RD3

ARSPAEMVLE TLMMELTGQM REAERQQRER SNAVRKVCTG VDYSWLASTP DSTYDLSPIE RLQLEDVCVK IHPSYCGPAI LRFRQLLAEQ EPEVQEVSQL FRSVLQEVLE RMKQEEEAHK LTRQWSLRPR GSLATFETEA EID

Show sample condition

Sample #1

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 273 K, pH 7.4

#	Name	Isotope labeling	Concentration
1	TRIS	[U-99% 2H]	5 mM
2	DTT	[U-99% 2H]	3 mM
3	sodium azide	natural abundance	0.04 % w/v
4	EDTA	[U-99% 2H]	50 uM
5	RD3	[U-99% 15N]	0.9 mM

Sample #2

Solvent system 95% H2O/5% D2O, Pressure 1 atm, Temperature 273 K, pH 7.4

#	Name	Isotope labeling	Concentration
6	TRIS	[U-99% 2H]	5 mM
7	DTT	[U-99% 2H]	3 mM
8	sodium azide	natural abundance	0.04 % w/v
9	EDTA	[U-99% 2H]	50 uM
10	RD3	[U-99% 13C; U-99% 15N]	0.9 mM

LACS Plot; CA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	0.0 ppm	internal	indirect	0.2514495
¹H	water	protons	4.795 ppm	internal	direct	1.0
¹⁵N	water	protons	0.0 ppm	internal	indirect	0.1013291

Referencing offset: -0.17 ppm, Outliers: 1 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	0.0 ppm	internal	indirect	0.2514495
¹H	water	protons	4.795 ppm	internal	direct	1.0
¹⁵N	water	protons	0.0 ppm	internal	indirect	0.1013291

Referencing offset: -0.17 ppm, Outliers: 1 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	0.0 ppm	internal	indirect	0.2514495
¹H	water	protons	4.795 ppm	internal	direct	1.0
¹⁵N	water	protons	0.0 ppm	internal	indirect	0.1013291

Referencing offset: 0.04 ppm, Outliers: 3 Detail

LACS Plot; CO

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	0.0 ppm	internal	indirect	0.2514495
¹H	water	protons	4.795 ppm	internal	direct	1.0
¹⁵N	water	protons	0.0 ppm	internal	indirect	0.1013291

Referencing offset: 0.09 ppm, Outliers: 1 Detail

Protein Blocks Logo

Calculated from 10 models in PDB: 6DRF, Strand ID: A Detail

Release date

2017-11-06

Citation

Chemical shift assignments of retinal degeneration 3 protein (RD3)
Lim, S., Cudia, D., Peshenko, I., Dizhoor, A.M., Ames, J.B.
Biomol. NMR Assign. (2018), 12, 167-170, PubMed 29327102 , DOI 10.1007/s12104-018-9802-y , Abstract

Related entities 1. RD3 monomer, : 7 entities Detail

Interaction partners 1. RD3 monomer, : 2 interactors Detail

More details for 2 interactors identified by 1 citations

Experiments performed 13 experiments Detail

1 2D 1H-15N HSQC