BMRB Entry 19673

Title:
NMR structure of p75 transmembrane domain in DPC micelles
Deposition date:
2013-12-12
Original release date:
2014-12-22
Authors:
Nadezhdin, Kirill; Arseniev, Alexander; Goncharuk, Sergey; Mineev, Konstantin
Citation:

Citation: Nadezhdin, Kirill; Arseniev, Alexander; Goncharuk, Sergey; Mineev, Konstantin; Vilar, Mar al. "Structure of dimeric p75 neurotrophin receptor transmembrane domain provides insight on neurotrophin signaling"  .

Assembly members:

Assembly members:
p75-TM-wt, polymer, 41 residues, 4562.378 Da.

Natural source:

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

Experimental source:   Production method: cell free synthesis   Host organism: E. coli - cell free   Vector: pGEMEX-1

Experimental source:

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

Experimental source:   Production method: cell free synthesis   Host organism: E. coli - cell free   Vector: pGEMEX-1

Entity Sequences (FASTA):

Entity Sequences (FASTA):
p75-TM-wt: MTRGTTDNLIPVYCSILAAV VVGLVAYIAFKRWNSSKQNK Q

Data sets:
Data typeCount
13C chemical shifts170
15N chemical shifts42
1H chemical shifts291

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1p75 transmembrane domain, 11
2p75 transmembrane domain, 21

Entities:

Entity 1, p75 transmembrane domain, 1 41 residues - 4562.378 Da.

1   METTHRARGGLYTHRTHRASPASNLEUILE
2   PROVALTYRCYSSERILELEUALAALAVAL
3   VALVALGLYLEUVALALATYRILEALAPHE
4   LYSARGTRPASNSERSERLYSGLNASNLYS
5   GLN

Samples:

sample_1: p75-TM-wt, [U-100% 13C; U-100% 15N], 1.9 mM; DPC, [U-98% 2H], 95 mM; sodium phosphate 20 mM; H2O 95%; D2O 5%

sample_conditions_1: pH: 5.9; pressure: 1 atm; temperature: 318 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
2D 1H-13C HSQC aliphaticsample_1isotropicsample_conditions_1
2D 1H-13C HSQC aromaticsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HNCAsample_1isotropicsample_conditions_1
3D HN(CO)CAsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-15N TOCSYsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aliphaticsample_1isotropicsample_conditions_1
3D 15N- and 13C-edited NOESY and 15N,13C-F1-filtered/F3-edited-NOESYsample_1isotropicsample_conditions_1

Software:

TOPSPIN v3.0, Bruker Biospin - collection, data analysis, processing

CYANA v3.0, Guntert, Mumenthaler and Wuthrich - structure solution

CARA, Keller, R - chemical shift assignment, data analysis, peak picking

TALOS-N, Yang Shen, and Ad Bax - angles constrains prediction

NMR spectrometers:

  • Bruker Avance 800 MHz
  • Bruker Avance 600 MHz

Related Database Links:

BMRB 19741 25646 25647 25648
PDB

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