BMRB Entry 25647

Name: Backbone and sidechain chemical shift assignment of rat p75NTR transmembrane and intracellular juxtamembrane domains in DPC micelles
Published: 2015-09-16

Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR25647

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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:

Backbone and sidechain chemical shift assignment of rat p75NTR transmembrane and intracellular juxtamembrane domains in DPC micelles

Deposition date:

2015-06-03

Original release date:

2015-09-16

Authors:

Mineev, Konstantin; Goncharuk, Sergey; Arseniev, Alexander

Citation:

Citation: Mineev, Konstantin; Goncharuk, Sergey; Kuzmichev, Pavel; Vilar, Marcal; Arseniev, Alexander. "NMR Dynamics of Transmembrane and Intracellular Domains of p75NTR in Lipid-Protein Nanodiscs" Biophys. J. 109, 772-782 (2015).
PubMed: 26287629

Assembly members:

Assembly members:
p75-TMDCD, polymer, 65 residues, Formula weight is not available

Natural source:

Natural source: Common Name: Norway rat Taxonomy ID: 10116 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Rattus norvegicus

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pGEMEX-1

Entity Sequences (FASTA):

Entity Sequences (FASTA):
p75-TMDCD: MTRGTTDNLIPVYCSILAAV VVGLVAYIAFKRWNSCKQNK QGANSRPVNQTPPPEGEKLH SDSGI

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	245
15N chemical shifts	61
1H chemical shifts	412

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	p75-TMDCD	1

Entities:

Entity 1, p75-TMDCD 65 residues - Formula weight is not available

Sequence numbering corresponds to the Uniprot ID P07174

1

MET

THR

ARG

GLY

THR

ASP

ASN

LEU

ILE

2

PRO

VAL

TYR

CYS

SER

ILE

LEU

ALA

VAL

3

VAL

GLY

LEU

VAL

ALA

TYR

ILE

ALA

PHE

4

LYS

ARG

TRP

ASN

SER

CYS

LYS

GLN

ASN

LYS

5

GLN

GLY

ALA

ASN

SER

ARG

PRO

VAL

ASN

GLN

6

THR

PRO

GLU

GLY

GLU

LYS

LEU

HIS

7

SER

ASP

SER

GLY

ILE

Samples:

sample_1: p75-TMDCD, [U-99% 13C; U-99% 15N], 0.5 mM; DPC, [U-99% 2H], 20 mM; potassium phosphate 20 mM; sodium chloride 50 mM; H2O 95%; D2O 5%

sample_conditions_1: ionic strength: 70 mM; pH: 6.5; pressure: 1 atm; temperature: 313 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_1	isotropic	sample_conditions_1
3D HNCA	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_1	isotropic	sample_conditions_1
3D HNCACB	sample_1	isotropic	sample_conditions_1
3D HN(CO)CA	sample_1	isotropic	sample_conditions_1
3D HN(CA)CO	sample_1	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_1	isotropic	sample_conditions_1

Software:

CARA v1.8, Keller and Wuthrich - chemical shift assignment, data analysis

NMR spectrometers:

Bruker Avance 600 MHz

UNP	P07174
BMRB	19673 25646 25648
DBJ	BAC29775 BAG36408 BAG64358
EMBL	CAA28783
GB	AAB59544 AAD17943 AAH38365 AAH50309 AAI42256
PRF	1303336A
REF	NP_001095948 NP_002498 NP_036742 NP_150086 XP_001090039
SP	P07174 P08138 Q9Z0W1
TPG	DAA18576
AlphaFold	P07174 P07174 P08138 Q9Z0W1