BMRB Entry 30212

Name: Ocellatin-LB2, solution structure in TFE by NMR spectroscopy
Published: 2017-03-24

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PDB ID: 5u9r
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR30212
MolProbity Validation Chart

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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:

Ocellatin-LB2, solution structure in TFE by NMR spectroscopy

Deposition date:

2016-12-18

Original release date:

2017-03-24

Authors:

Gusmao, K.; dos Santos, D.; Santos, V.; Pilo-Veloso, D.; Verly, R.; de Lima, M.; Resende, J.

Citation:

Citation: Gusmao, Karla; Dos Santos, Daniel; Santos, Virgilio; Cortes, Maria Esperanza; Reis, Pablo; Santos, Vera; Pilo-Veloso, Dorila; Verly, Rodrigo; de Lima, Maria Elena; Resende, Jarbas. "Ocellatin peptides from the skin secretion of the South American frog Leptodactylus labyrinthicus (Leptodactylidae): characterization, antimicrobial activities and membrane interactions" J. Venom. Anim. Toxins Incl. Trop. Dis. 23, 4-4 (2017).
PubMed: 28115922

Assembly members:

Assembly members:
entity_1, polymer, 24 residues, 2309.751 Da.

Natural source:

Natural source: Common Name: frogs and toads Taxonomy ID: 326590 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Leptodactylus labyrinthicus

Experimental source:

Experimental source: Production method: chemical synthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: GVVDILKGAAKDIAGHLASK VMNX

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
13C chemical shifts	71
15N chemical shifts	22
1H chemical shifts	152

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 24 residues - 2309.751 Da.

1

GLY

VAL

ASP

ILE

LEU

LYS

GLY

ALA

2

LYS

ASP

ILE

ALA

GLY

HIS

LEU

ALA

SER

LYS

3

VAL

MET

ASN

NH2

Samples:

sample_1: DSS 1 mM; H2O 40%; Ocellatin-LB1 2.0 mM; TFE, [U-2H], 60%; potassium phosphate 20 mM

sample_conditions_1: pH: 7; pressure: 1 atm; temperature: 293.15 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-1H TOCSY	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1

Software:

Molmol, Koradi, Billeter and Wuthrich - data analysis

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

NMRView, Johnson, One Moon Scientific - chemical shift assignment

Procheck, Laskowski, MacArthur, Smith, Jones, Hutchinson, Morris, Moss and Thornton - data analysis

X-PLOR_NIH 2.27, Schwieters, Kuszewski, Tjandra and Clore - refinement, structure calculation

xwinnmr, Bruker Biospin - collection

NMR spectrometers:

Bruker AvanceIII 600 MHz

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