BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
Member of WWPDB

BMRB Entry 25833

Title: p75NTR DD:RIP2 CARD   PubMed: 26646181

Deposition date: 2015-10-02 Original release date: 2015-12-21

Authors: Lin, Zhi; Ibanez, Carlos

Citation: Lin, Zhi; Tann, Jason; Goh, Eddy; Kelly, Claire; Lim, Kim; Gao, Jian; Ibanez, Carlos. "Structural basis of death domain signaling in the p75 neurotrophin receptor"  Elife 4, 11692-11692 (2015).

Assembly members:
entity_1, polymer, 98 residues, 10172.424 Da.
entity_2, polymer, 106 residues, 12059.932 Da.

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

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli

Entity Sequences (FASTA):
entity_1: KGDGGLYSSLPPAKREEVEK LLNGSAGDTWRHLAGELGYQ PEHIDSFTHEACPVRALLAS WATQDSATLDALLAALRRIQ RADLVESLCSESTATSPV
entity_2: GIAQQWIQSKREDIVNQMTE ACLNQSLDALLSRDLIMKED YELVSTKPTRTSKVRQLLDT TDIQGEEFAKVIVQKLKDNK QMGLQPYPEILVVSRSPSLN LLQNKS

Data sets:
Data typeCount
13C chemical shifts675
15N chemical shifts225
1H chemical shifts1415

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1entity_11
2entity_22

Entities:

Entity 1, entity_1 98 residues - 10172.424 Da.

1   LYSGLYASPGLYGLYLEUTYRSERSERLEU
2   PROPROALALYSARGGLUGLUVALGLULYS
3   LEULEUASNGLYSERALAGLYASPTHRTRP
4   ARGHISLEUALAGLYGLULEUGLYTYRGLN
5   PROGLUHISILEASPSERPHETHRHISGLU
6   ALACYSPROVALARGALALEULEUALASER
7   TRPALATHRGLNASPSERALATHRLEUASP
8   ALALEULEUALAALALEUARGARGILEGLN
9   ARGALAASPLEUVALGLUSERLEUCYSSER
10   GLUSERTHRALATHRSERPROVAL

Entity 2, entity_2 106 residues - 12059.932 Da.

1   GLYILEALAGLNGLNTRPILEGLNSERLYS
2   ARGGLUASPILEVALASNGLNMETTHRGLU
3   ALACYSLEUASNGLNSERLEUASPALALEU
4   LEUSERARGASPLEUILEMETLYSGLUASP
5   TYRGLULEUVALSERTHRLYSPROTHRARG
6   THRSERLYSVALARGGLNLEULEUASPTHR
7   THRASPILEGLNGLYGLUGLUPHEALALYS
8   VALILEVALGLNLYSLEULYSASPASNLYS
9   GLNMETGLYLEUGLNPROTYRPROGLUILE
10   LEUVALVALSERARGSERPROSERLEUASN
11   LEULEUGLNASNLYSSER

Samples:

sample_1: p75NTR DD, [U-99% 13C; U-99% 15N], 0.5 mM; DTT, [U-98% 2H], 10 mM; RIP2 CARD 1 mM

sample_2: RIP2 CARD, [U-99% 13C; U-99% 15N], 0.5 mM; p75NTR DD 1 mM; DTT, [U-98% 2H], 10 mM

sample_conditions_1: pressure: 1 atm; temperature: 273 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 HNCACBsample_1isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D HCCH-TOCSYsample_1isotropicsample_conditions_1
3D 13C,15N-filtered NOESYsample_1isotropicsample_conditions_1
3D 13C, 15N-edited NOESYsample_1isotropicsample_conditions_1
2D 1H-15N HSQCsample_2isotropicsample_conditions_1
2D 1H-13C HSQC aliphaticsample_2isotropicsample_conditions_1
2D 1H-13C HSQC aromaticsample_2isotropicsample_conditions_1
3D HNCAsample_2isotropicsample_conditions_1
3D HN(CO)CAsample_2isotropicsample_conditions_1
3D HCCH-TOCSYsample_2isotropicsample_conditions_1
3D 13C,15N-filtered NOESYsample_2isotropicsample_conditions_1
4D 13C, 15N-edited NOESYsample_2isotropicsample_conditions_1

Software:

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

NMRView, Johnson, One Moon Scientific - data analysis

CYANA, Guntert, Braun and Wuthrich - structure solution

AMBER, Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman - refinement

NMR spectrometers:

  • Bruker Avance 800 MHz

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