BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
Member of WWPDB

BMRB Entry 17923

Title: 3D solution structure of plant defensin Lc-def

Deposition date: 2011-09-07 Original release date: 2012-09-05

Authors: Shenkarev, Zakhar; Mineev, Konstantin; Gizatullina, Albina

Citation: Shenkarev, Zakhar; Mineev, Konstantin; Gizatullina, Albina; Finkina, Ekaterina; Arseniev, Alexander; Ovchinnikova, Tatyana. "Solution structure of defensin Lc-def from germinated lentil (Lens Culinaris) seeds"  Biochemistry ., .-..

Assembly members:
entity, polymer, 47 residues, 5460.254 Da.

Natural source:   Common Name: lentil   Taxonomy ID: 3864   Superkingdom: Eukaryota   Kingdom: Viridiplantae   Genus/species: Lens culinaris

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli

Entity Sequences (FASTA):
entity: KTCENLSDSFKGPCIPDGNC NKHCKEKEHLLSGRCRDDFR CWCTRNC

Data sets:
Data typeCount
13C chemical shifts54
15N chemical shifts45
1H chemical shifts286

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1defensin Lc-def from germinated lentil seeds1

Entities:

Entity 1, defensin Lc-def from germinated lentil seeds 47 residues - 5460.254 Da.

1   LYSTHRCYSGLUASNLEUSERASPSERPHE
2   LYSGLYPROCYSILEPROASPGLYASNCYS
3   ASNLYSHISCYSLYSGLULYSGLUHISLEU
4   LEUSERGLYARGCYSARGASPASPPHEARG
5   CYSTRPCYSTHRARGASNCYS

Samples:

sample_1: Lc-def 1 mM

sample_2: Lc-def, [U-100% 15N], 0.5 mM

sample_conditions_1: ionic strength: 0 M; pH: 5.0; pressure: 1 atm; temperature: 303 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-1H TOCSYsample_1isotropicsample_conditions_1
2D 1H-1H NOESYsample_1isotropicsample_conditions_1
2D DQF-COSYsample_1isotropicsample_conditions_1
2D 1H-13C HSQCsample_1isotropicsample_conditions_1
3D HNHAsample_2isotropicsample_conditions_1
3D HNHBsample_2isotropicsample_conditions_1
3D 1H-15N NOESYsample_2isotropicsample_conditions_1
3D 1H-15N TOCSYsample_2isotropicsample_conditions_1

Software:

XEASY, Keller and Wuthrich - chemical shift assignment, peak picking

CYANA, Guntert, Mumenthaler and Wuthrich - data analysis, structure solution

NMR spectrometers:

  • Bruker Avance 600 MHz

Related Database Links:

PDB
GB ABP04037
SP B3F051

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