BMRB Entry 27102

Name: Backbone assignments for the Val66 prodomain of BDNF
Published: 2021-07-22

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR27102

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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 assignments for the Val66 prodomain of BDNF PubMed: 28933046

Deposition date: 2017-05-09 Original release date: 2021-07-22

Authors: Wang, Jing; Bracken, Clay; Bains, Henrietta; Anastasia, Agustin

Citation: Wang, Jing; Bains, Henrietta; Anastasia, Agustin; Bracken, Clay. "NMR backbone resonance assignments of the prodomain variants of BDNF in the urea denatured state" Biomol. NMR Assign. 12, 43-45 (2018).

Assembly members:
Val66_BDNF_Prodomain, polymer, 112 residues, Formula weight is not available

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 Vector: pET28

Entity Sequences (FASTA):
Val66_BDNF_Prodomain: SMAPMKEANIRGQGGLAYPG VRTHGTLESVNGPKAGSRGL TSLADTFEHVIEELLDEDQK VRPNEENNKDADLYTSRVML SSQVPLEPPLLFLLEEYKNY LDAANMSMRVRR

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	303
15N chemical shifts	102
1H chemical shifts	102

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	Val66 BDNF Prodomain	1

Entities:

Entity 1, Val66 BDNF Prodomain 112 residues - Formula weight is not available

1

SER

MET

ALA

PRO

MET

LYS

GLU

ALA

ASN

ILE

2

ARG

GLY

GLN

GLY

LEU

ALA

TYR

PRO

GLY

3

VAL

ARG

THR

HIS

GLY

THR

LEU

GLU

SER

VAL

4

ASN

GLY

PRO

LYS

ALA

GLY

SER

ARG

GLY

LEU

5

THR

SER

LEU

ALA

ASP

THR

PHE

GLU

HIS

VAL

6

ILE

GLU

LEU

ASP

GLU

ASP

GLN

LYS

7

VAL

ARG

PRO

ASN

GLU

ASN

LYS

ASP

8

ALA

ASP

LEU

TYR

THR

SER

ARG

VAL

MET

LEU

9

SER

GLN

VAL

PRO

LEU

GLU

PRO

LEU

10

LEU

PHE

LEU

GLU

TYR

LYS

ASN

TYR

11

LEU

ASP

ALA

ASN

MET

SER

MET

ARG

VAL

12

ARG

Samples:

sample_1: Val66 BDNF Prodomain, [U-95% 13C; U-95% 15N], 0.3 mM; urea 2 M; sodium chloride 100 mM; TRIS 10 mM; glycine 10 mM; PIPES 10 mM; DSS 0.1 mM; D2O 7%; H2O 93%; EDTA 0.5 mM

sample_conditions_1: ionic strength: 100 mM; pH: 7.2; pressure: 1 atm; temperature: 278 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_1	isotropic	sample_conditions_1
3D HCACO	sample_1	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_1	isotropic	sample_conditions_1
3D H(CCO)NH	sample_1	isotropic	sample_conditions_1
3D HNCA	sample_1	isotropic	sample_conditions_1

Software:

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

SPARKY, Goddard - chemical shift assignment, peak picking

NMR spectrometers:

Bruker Avance 600 MHz

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