BMRB Entry 36012

Name: Solution structure of nedd8 from Trypanosoma brucei
Published: 2017-07-24

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PDB ID: 5go0
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR36012
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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:

Solution structure of nedd8 from Trypanosoma brucei

Deposition date:

2016-07-25

Original release date:

2017-07-24

Authors:

Wang, R.; Liao, S.; Zhang, J.; Tu, X.

Citation:

Citation: Wang, R.; Liao, S.; Zhang, J.; Tu, X.. "Solution structure of nedd8 from Trypanosoma brucei" .

Assembly members:

Assembly members:
entity_1, polymer, 86 residues, 9697.252 Da.

Natural source:

Natural source: Common Name: Trypanosoma brucei Taxonomy ID: 185431 Superkingdom: Eukaryota Kingdom: not available Genus/species: Trypanosoma brucei

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli-Pichia pastoris shuttle vector pPpARG4

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: MGHHHHHHMLLKVKTVSNKV IQITSLTDDNTIAELKGKLE ESEGIPGNMIRLVYQGKQLE DEKRLKDYQMSAGATFHMVV ALRAGC

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
13C chemical shifts	223
15N chemical shifts	77
1H chemical shifts	479

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	entity_1	1

Entities:

Entity 1, entity_1 86 residues - 9697.252 Da.

1

MET

GLY

HIS

MET

LEU

2

LEU

LYS

VAL

LYS

THR

VAL

SER

ASN

LYS

VAL

3

ILE

GLN

ILE

THR

SER

LEU

THR

ASP

ASN

4

THR

ILE

ALA

GLU

LEU

LYS

GLY

LYS

LEU

GLU

5

GLU

SER

GLU

GLY

ILE

PRO

GLY

ASN

MET

ILE

6

ARG

LEU

VAL

TYR

GLN

GLY

LYS

GLN

LEU

GLU

7

ASP

GLU

LYS

ARG

LEU

LYS

ASP

TYR

GLN

MET

8

SER

ALA

GLY

ALA

THR

PHE

HIS

MET

VAL

9

ALA

LEU

ARG

ALA

GLY

CYS

Samples:

sample_1: entity_1 mM; Dithiothreitol 2 mM; Ethylene Diamine Tetraacetic Acid 2 uM; Sodium dihydrogen phosphate 20 mM; arginine 25 uM; glutamine 25 uM; sodium chloride 150 uM; D2O, [U-2H], 100%

sample_conditions_1: ionic strength: 150 mM; pH: 6.7; pressure: 1 atm; temperature: 293 K

Experiments:

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

Software:

CYANA, Guntert, Mumenthaler and Wuthrich - structure calculation

NMRDraw, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - data analysis

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - data analysis

SPARKY, Goddard - chemical shift assignment

NMR spectrometers:

Bruker DMX 500 MHz

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