BMRB Entry 28099

Name: NMR Assignments of the Programmed Cell Death 5 (PDCD5) Protein from Toxoplasma gondii
Published: 2021-07-16

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR28099

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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:

NMR Assignments of the Programmed Cell Death 5 (PDCD5) Protein from Toxoplasma gondii

Deposition date:

2020-03-11

Original release date:

2021-07-16

Authors:

Lin, Meng-Hsuan; Hsu, Chun-Hua

Citation:

Citation: Lin, Meng-Hsuan; Yu, Tsun-Ai; Chang, Chi-Fon; Nishikawa, Yoshifumi; Hsu, Chun-Hua. "NMR resonance assignments of the programmed cell death protein 5 (PDCD5) from Toxoplasma gondii" Biomol. NMR Assign. 14, 277-280 (2020).
PubMed: 32578164

Assembly members:

Assembly members:
TgPDCD5, polymer, 123 residues, Formula weight is not available

Natural source:

Natural source: Common Name: Toxoplasma gondii Taxonomy ID: 5811 Superkingdom: Eukaryota Kingdom: not available Genus/species: Toxoplasma gondii

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pET-28a

Entity Sequences (FASTA):

Entity Sequences (FASTA):
TgPDCD5: SMQPEEFAAAARGGFGGDAE KAKAAEAQEAMRQQMEEQRR IMLRAVLTPAAQERLHRIQL VKADKAREVEALILQNAQRG RLADKVDEATLIELLQQTSA ASAAKNTPKVTMRRRFSDDD DDF

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	486
15N chemical shifts	143
1H chemical shifts	888

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	TgPDCD5	1

Entities:

Entity 1, TgPDCD5 123 residues - Formula weight is not available

Residue S 0 is the remained amino acid after TEV protease cleavage.

1

SER

MET

GLN

PRO

GLU

PHE

ALA

2

ALA

ARG

GLY

PHE

GLY

ASP

ALA

GLU

3

LYS

ALA

LYS

ALA

GLU

ALA

GLN

GLU

ALA

4

MET

ARG

GLN

MET

GLU

GLN

ARG

5

ILE

MET

LEU

ARG

ALA

VAL

LEU

THR

PRO

ALA

6

ALA

GLN

GLU

ARG

LEU

HIS

ARG

ILE

GLN

LEU

7

VAL

LYS

ALA

ASP

LYS

ALA

ARG

GLU

VAL

GLU

8

ALA

LEU

ILE

LEU

GLN

ASN

ALA

GLN

ARG

GLY

9

ARG

LEU

ALA

ASP

LYS

VAL

ASP

GLU

ALA

THR

10

LEU

ILE

GLU

LEU

GLN

THR

SER

ALA

11

ALA

SER

ALA

LYS

ASN

THR

PRO

LYS

VAL

12

THR

MET

ARG

PHE

SER

ASP

13

ASP

PHE

Samples:

sample_1: TgPDCD5, [U-13C; U-15N], 0.4 mM; sodium phosphate 25 mM; NaCl 100 mM

sample_conditions_1: ionic strength: 0.1 M; pH: 4.5; temperature: 310 K

Experiments:

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

Software:

TOPSPIN, Bruker Biospin - collection

NMR spectrometers:

Bruker Avance 800 MHz
Bruker Avance 600 MHz

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