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Found 1 Document (0.777 seconds)

BMRB: 17027

2L03

NMR-derived spatial structure of water-soluble Lynx1

Authors

Mineev, K.S., Shenkarev, Z.O., Arseniev, A.S.

Assembly

lynx1

Entity

1. lynx1 (polymer, Thiol state: all disulfide bound), 74 monomers, 8409.637 Da Detail

MLDCHVCAYN GDNCFNPMRC PAMVAYCMTT RTYYTPTRMK VSKSCVPRCF ETVYDGYSKH ASTTSCCQYD LCNG

Formula weight

8409.637 Da

Entity Connection

disulfide 5 Detail

ID	Type	Value order	Atom ID 1	Atom ID 2
1	disulfide	sing	1:CYS4:SG	1:CYS27:SG
2	disulfide	sing	1:CYS7:SG	1:CYS14:SG
3	disulfide	sing	1:CYS20:SG	1:CYS45:SG
4	disulfide	sing	1:CYS49:SG	1:CYS66:SG
5	disulfide	sing	1:CYS67:SG	1:CYS72:SG

Source organism

Exptl. method

Refine. method

simulated annealing, torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 65.2 %, Completeness (bb): 56.4 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	65.2 % (533 of 818)	94.8 % (399 of 421)	18.6 % (60 of 322)	98.7 % (74 of 75)
Backbone	56.4 % (246 of 436)	98.0 % (144 of 147)	15.1 % (33 of 219)	98.6 % (69 of 70)
Sidechain	67.5 % (306 of 453)	93.1 % (255 of 274)	26.4 % (46 of 174)	100.0 % (5 of 5)
Aromatic	45.2 % (38 of 84)	90.5 % (38 of 42)	0.0 % (0 of 42)
Methyl	96.2 % (50 of 52)	100.0 % (26 of 26)	92.3 % (24 of 26)

1. Lynx1

MLDCHVCAYN GDNCFNPMRC PAMVAYCMTT RTYYTPTRMK VSKSCVPRCF ETVYDGYSKH ASTTSCCQYD LCNG

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 (±0.1) K, pH 5.3 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	Lynx1	[U-99% 15N]		0.5 mM
2	acetic acid	natural abundance		20 mM
3	sodium azide	natural abundance		1 mM
4	H2O	natural abundance		90 %
5	D2O	natural abundance		10 %

Sample #2

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 (±0.1) K, pH 5.3 (±0.1)

#	Name	Isotope labeling	Type	Concentration
6	Lynx1	natural abundance		1.0 mM
7	acetic acid	natural abundance		20 mM
8	sodium azide	natural abundance		1 mM
9	H2O	natural abundance		90 %
10	D2O	natural abundance		10 %

Protein Blocks Logo

Calculated from 20 models in PDB: 2L03, Strand ID: A Detail

Release date

2011-03-31

Citation

NMR structure and action on nicotinic acetylcholine receptors of water-soluble domain of human LYNX1
Lyukmanova, E.N., Shenkarev, Z.O., Shulepko, M.A., Mineev, K.S., Kasheverov, D., Filkin, I.E., Krivolapova, S., Janickova, A.P., Dolezal, H., Dolgikh, V., Arseniev, D.A., Bertrand, A.S., Tsetlin, D., Kirpichnikov, V.I.
J. Biol. Chem. (2011), 286, 10618-10627, PubMed 21252236 , DOI 10.1074/jbc.M110.189100 , Abstract

Entries sharing articles Swiss-Prot: 1 entries Detail

Swiss-Prot: Q9BZG9 released on 2002-10-19
Title LYNX1_HUMAN Entity Ly-6/neurotoxin-like protein 1

Related entities 1. lynx1, : 1 : 3 : 30 entities Detail

Experiments performed 9 experiments Detail

1 2D 1H-15N HSQC

Instrument

Bruker Avance - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 (±0.1) K, pH 5.3 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	Lynx1	[U-99% 15N]		0.5 mM
2	acetic acid	natural abundance		20 mM
3	sodium azide	natural abundance		1 mM
4	H2O	natural abundance		90 %
5	D2O	natural abundance		10 %

2 3D 1H-15N NOESY

Instrument

Bruker Avance - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 (±0.1) K, pH 5.3 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	Lynx1	[U-99% 15N]		0.5 mM
2	acetic acid	natural abundance		20 mM
3	sodium azide	natural abundance		1 mM
4	H2O	natural abundance		90 %
5	D2O	natural abundance		10 %

3 3D 1H-15N TOCSY

Instrument

Bruker Avance - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 (±0.1) K, pH 5.3 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	Lynx1	[U-99% 15N]		0.5 mM
2	acetic acid	natural abundance		20 mM
3	sodium azide	natural abundance		1 mM
4	H2O	natural abundance		90 %
5	D2O	natural abundance		10 %

4 3D HNHA

Instrument

Bruker Avance - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 (±0.1) K, pH 5.3 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	Lynx1	[U-99% 15N]		0.5 mM
2	acetic acid	natural abundance		20 mM
3	sodium azide	natural abundance		1 mM
4	H2O	natural abundance		90 %
5	D2O	natural abundance		10 %

5 3D HNHB

Instrument

Bruker Avance - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 (±0.1) K, pH 5.3 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	Lynx1	[U-99% 15N]		0.5 mM
2	acetic acid	natural abundance		20 mM
3	sodium azide	natural abundance		1 mM
4	H2O	natural abundance		90 %
5	D2O	natural abundance		10 %

6 2D 1H-13C HSQC

Instrument

Bruker Avance - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 (±0.1) K, pH 5.3 (±0.1)

#	Name	Isotope labeling	Type	Concentration
6	Lynx1	natural abundance		1.0 mM
7	acetic acid	natural abundance		20 mM
8	sodium azide	natural abundance		1 mM
9	H2O	natural abundance		90 %
10	D2O	natural abundance		10 %

7 2D 1H-1H TOCSY

Instrument

Bruker Avance - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 (±0.1) K, pH 5.3 (±0.1)

#	Name	Isotope labeling	Type	Concentration
6	Lynx1	natural abundance		1.0 mM
7	acetic acid	natural abundance		20 mM
8	sodium azide	natural abundance		1 mM
9	H2O	natural abundance		90 %
10	D2O	natural abundance		10 %

8 2D 1H-1H NOESY

Instrument

Bruker Avance - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 (±0.1) K, pH 5.3 (±0.1)

#	Name	Isotope labeling	Type	Concentration
6	Lynx1	natural abundance		1.0 mM
7	acetic acid	natural abundance		20 mM
8	sodium azide	natural abundance		1 mM
9	H2O	natural abundance		90 %
10	D2O	natural abundance		10 %

9 2D DQF-COSY

Instrument

Bruker Avance - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 (±0.1) K, pH 5.3 (±0.1)

#	Name	Isotope labeling	Type	Concentration
6	Lynx1	natural abundance		1.0 mM
7	acetic acid	natural abundance		20 mM
8	sodium azide	natural abundance		1 mM
9	H2O	natural abundance		90 %
10	D2O	natural abundance		10 %

Chemical shift validation 3 contents Detail

Properties

Input source #1: Assigned chemical shifts - Assigned chemical shifts	bmr17027_3.str
Diamagnetism of the molecular assembly	True (excluding Oxygen atoms)
Whether the assembly has a disulfide bond	True (see coordinates for details)
Whether the assembly has a other bond	None
Whether the assembly contains a cyclic polymer	None
Overall data processing status	Warning

Disulfide bonds

Ptnr_site_1	Ptnr_site_2	Redox_state_prediction_1	Redox_state_prediction_2	Distance (Å)
1:4:CYS:SG	1:27:CYS:SG	unknown	unknown	n/a
1:7:CYS:SG	1:14:CYS:SG	unknown	unknown	n/a
1:20:CYS:SG	1:45:CYS:SG	unknown	unknown	n/a
1:49:CYS:SG	1:66:CYS:SG	unknown	unknown	n/a
1:67:CYS:SG	1:72:CYS:SG	unknown	unknown	n/a

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

None

Non-standard residues

None

Content subtype: bmr17027_3.str

#	Content subtype	Saveframe	Status	# of rows	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	577		100.0 (chain: 1, length: 74)
1	Chemical shift references	chemical_shift_reference_1	OK	3		No information

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: 1, Chain length: 74, Sequence coverage: 100.0%
- Total number of assignments
  - ¹H chemical shifts: 458
  - ¹³C chemical shifts: 40
  - ¹⁵N chemical shifts: 79
- Completeness of assignments
  - Entity_assemble_ID: 1
- 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 acethylcholine receptor, Lynx1, NMR, spatial structure