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Biological Magnetic Resonance Data Bank


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BMRB Entry 19562

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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, SPARTA
BMRB Entry DOI: doi:10.13018/BMR19562
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Title: NMR solution structures of FRS2a PTB domain with neurotrophin receptor TrkB   PubMed: 24470253

Deposition date: 2013-10-18 Original release date: 2014-02-12

Authors: Zeng, Lei; Zhou, Ming-Ming

Citation: Zeng, Lei; Kuti, Miklos; Mujtaba, Shiraz; Zhou, Ming-Ming. "Structural insights into FRS2 PTB domain recognition by neurotrophin receptor TrkB."  Proteins 82, 1534-1541 (2014).

Assembly members:
entity_1, polymer, 115 residues, 13441.146 Da.
entity_2, polymer, 24 residues, 2553.905 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: SHMDTVPDNHRNKFKVINVD DDGNELGSGIMELTDTELIL YTRKRDSVKWHYLCLRRYGY DSNLFSFESGRRCQTGQGIF AFKCARAEELFNMLQEIMQN NSINVVEEPVVERNN
entity_2: GGPDAVIIGMTKIPVIENPQ XFGI

Data sets:
Data typeCount
13C chemical shifts419
15N chemical shifts134
1H chemical shifts862

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
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Assembly:

Entity Assembly IDEntity NameEntity ID
1FRS2a PTB domain1
2neurotrophin receptor TrkB2

Entities:

Entity 1, FRS2a PTB domain 115 residues - 13441.146 Da.

1   SERHISMETASPTHRVALPROASPASNHIS
2   ARGASNLYSPHELYSVALILEASNVALASP
3   ASPASPGLYASNGLULEUGLYSERGLYILE
4   METGLULEUTHRASPTHRGLULEUILELEU
5   TYRTHRARGLYSARGASPSERVALLYSTRP
6   HISTYRLEUCYSLEUARGARGTYRGLYTYR
7   ASPSERASNLEUPHESERPHEGLUSERGLY
8   ARGARGCYSGLNTHRGLYGLNGLYILEPHE
9   ALAPHELYSCYSALAARGALAGLUGLULEU
10   PHEASNMETLEUGLNGLUILEMETGLNASN
11   ASNSERILEASNVALVALGLUGLUPROVAL
12   VALGLUARGASNASN

Entity 2, neurotrophin receptor TrkB 24 residues - 2553.905 Da.

1   GLYGLYPROASPALAVALILEILEGLYMET
2   THRLYSILEPROVALILEGLUASNPROGLN
3   PTRPHEGLYILE

Samples:

sample_2: FRS2a PTB domain mM; neurotrophin receptor TrkB mM; sodium phosphate 100 mM; DTT, [U-100% 2H], 5 mM; EDTA, [U-100% 2H], 0.5 mM

sample_1: FRS2a PTB domain mM; neurotrophin receptor TrkB mM; sodium phosphate 100 mM; DTT, [U-100% 2H], 5 mM; EDTA, [U-100% 2H], 0.5 mM

sample_conditions_1: pH: 6.5; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
3D HNCACBsample_2isotropicsample_conditions_1
3D HNz(CO)CACBsample_2isotropicsample_conditions_1
3D 1H-15N NOESYsample_2isotropicsample_conditions_1
3D 1H-15N TOCSYsample_2isotropicsample_conditions_1
3D 1H-13C NOESY aliphaticsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aromaticsample_1isotropicsample_conditions_1
3D 13C-edited 13C/15N-filtered NOESYsample_1isotropicsample_conditions_1

Software:

ARIA v2.2, Linge, O'Donoghue and Nilges - refinement

NMRPipe v2.3, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - chemical shift calculation, processing

NMRView v5.04, Johnson, One Moon Scientific - chemical shift assignment, data analysis, peak picking

CNS v1.2, Brunger, Adams, Clore, Gros, Nilges and Read - geometry optimization, structure solution

NMR spectrometers:

  • Bruker DRX 500 MHz
  • Bruker DRX 600 MHz
  • Bruker Avance 800 MHz

Related Database Links:

PDB
DBJ BAC26132 BAG35381 BAI45690
GB AAB92554 AAH21562 AAH43109 AAH55334 ABY87531
REF NP_001036020 NP_001101567 NP_001186555 NP_001230138 NP_001265280
SP Q8C180 Q8WU20
TPG DAA29812

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