BMRB Entry 51364

Name: TrkB-TM dimer
Published: 2023-06-05

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR51364

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Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

TrkB-TM dimer

Deposition date:

2022-03-17

Original release date:

2023-06-05

Authors:

Kot, Erik; Goncharuk, Sergey; Mineev, Konstantin

Citation:

Citation: Moliner, Rafael; Girych, Mykhailo; Brunello, Cecilia; Kovaleva, Vera; Biojone, Caroline; Enkavi, Giray; Antenucci, Lina; Kot, Erik; Goncharuk, Sergey; Kaurinkoski, Katja; Kuutti, Mirjami; Fred, Senem; Elsila, Lauri; Sakson, Sven; Cannarozzo, Cecilia; Diniz, Cassiano; Seiffert, Nina; Rubiolo, Anna; Haapaniemi, Hele; Meshi, Elsa; Nagaeva, Elina; Ohman, Tiina; Rog, Tomasz; Kankuri, Esko; Vilar, Marcal; Varjosalo, Markku; Korpi, Esa; Permi, Perttu; Mineev, Konstantin; Saarma, Mart; Vattulainen, Ilpo; Casarotto, Plinio; Castren, Eero. "Psychedelics promote plasticity by directly binding to BDNF receptor TrkB" Nat. Neurosci. 26, 1032-1041 (2023).

Assembly members:

Assembly members:
entity_1, polymer, 45 residues, Formula weight is not available

Natural source:

Natural source: Common Name: Human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens

Experimental source:

Experimental source: Production method: cell free synthesis Host organism: Escherichia coli Vector: pGEMEX1

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: MTDKTGREHLSVYAVVVIAS VVGFCLLVMLFLLKLARHSK FGMKG

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
13C chemical shifts	195
15N chemical shifts	45
1H chemical shifts	338

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	TrkB-TM, chain 1	1
2	TrkB-TM, chain 2	1

Entities:

Entity 1, TrkB-TM, chain 1 45 residues - Formula weight is not available

1

MET

THR

ASP

LYS

THR

GLY

ARG

GLU

HIS

LEU

2

SER

VAL

TYR

ALA

VAL

ILE

ALA

SER

3

VAL

GLY

PHE

CYS

LEU

VAL

MET

LEU

4

PHE

LEU

LYS

LEU

ALA

ARG

HIS

SER

LYS

5

PHE

GLY

MET

LYS

GLY

Samples:

sample_1: TrkB-TM monomer, [U-13C; U-15N], 1.05 mM; D2O, [U-2H], 5%; DMPC, [U-2H], 9.6 mM; DHPC, [U-2H], 42.7 mM; NaN3 0.01%; sodium phosphate 20 mM; TCEP 1.4 mM

sample_conditions_1: ionic strength: 20 mM; pH: 5.98; pressure: 1 atm; temperature: 313 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N TROSY	sample_1	isotropic	sample_conditions_1
3D HNCA	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_1	isotropic	sample_conditions_1
3D HN(CO)CA	sample_1	isotropic	sample_conditions_1

Software:

CARA - chemical shift assignment, data analysis, peak picking

NMR spectrometers:

Bruker Avance 600 MHz

Download HSQC peak lists in one of the following formats:
CSV: Backbone or all simulated peaks
SPARKY: Backbone or all simulated peaks