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 19834

Click here to enlarge.

PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, SPARTA
BMRB Entry DOI: doi:10.13018/BMR19834
MolProbity Validation Chart

NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
NMR-STAR v2.1 text file (deprecated)
XML gzip file.
RDF gzip file.
All files associated with the entry

Title: New Cyt-like delta-endotoxins from Dickeya dadantii - CytC protein

Deposition date: 2014-03-05 Original release date: 2015-02-16

Authors: Loth, Karine; Costechareyre, Denis; Effantin, Geraldine; Rahbe, Yvan; Contemine, Guy; Landon, Celine; Da Silva, Pedro

Citation: Loth, Karine; Costechareyre, Denis; Effantin, Geraldine; Rahbe, Yvan; Contdemine, Guy; Landon, Celine; Da Silva, Pedro. "New Cyt-like delta-endotoxins from Dickeya dadantii : structure and aphicidal activity"  JBC ., .-..

Assembly members:
entity, polymer, 203 residues, 22412.430 Da.

Natural source:   Common Name: enterobacteria   Taxonomy ID: 204038   Superkingdom: Bacteria   Kingdom: not available   Genus/species: Dickeya dadantii

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

Entity Sequences (FASTA):
entity: MSIEIYPDDGNTLPYQVFLN LENEHYYAQAIQLAQLFAHE VDDNGQLDLAKALKKAQAQP DLAIIATNNMTLKKSFSTLS ALTTTLSEQLKIEGVLGISQ DTYIQNILSHAFCDLETQKD KPWFHINAQPDAGHSVTSYS YSLFIVSQGEETGAMMAAGP LIITVTPNTAISDIFNTKDW RLTLQKEEITIGVKGFQVVT PLG

Data sets:
Data typeCount
13C chemical shifts727
15N chemical shifts215
1H chemical shifts1161

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1entity1

Entities:

Entity 1, entity 203 residues - 22412.430 Da.

1   METSERILEGLUILETYRPROASPASPGLY
2   ASNTHRLEUPROTYRGLNVALPHELEUASN
3   LEUGLUASNGLUHISTYRTYRALAGLNALA
4   ILEGLNLEUALAGLNLEUPHEALAHISGLU
5   VALASPASPASNGLYGLNLEUASPLEUALA
6   LYSALALEULYSLYSALAGLNALAGLNPRO
7   ASPLEUALAILEILEALATHRASNASNMET
8   THRLEULYSLYSSERPHESERTHRLEUSER
9   ALALEUTHRTHRTHRLEUSERGLUGLNLEU
10   LYSILEGLUGLYVALLEUGLYILESERGLN
11   ASPTHRTYRILEGLNASNILELEUSERHIS
12   ALAPHECYSASPLEUGLUTHRGLNLYSASP
13   LYSPROTRPPHEHISILEASNALAGLNPRO
14   ASPALAGLYHISSERVALTHRSERTYRSER
15   TYRSERLEUPHEILEVALSERGLNGLYGLU
16   GLUTHRGLYALAMETMETALAALAGLYPRO
17   LEUILEILETHRVALTHRPROASNTHRALA
18   ILESERASPILEPHEASNTHRLYSASPTRP
19   ARGLEUTHRLEUGLNLYSGLUGLUILETHR
20   ILEGLYVALLYSGLYPHEGLNVALVALTHR
21   PROLEUGLY

Samples:

sample_1: CytC, [U-13C; U-15N], 0.3 mM; TRIS 50 mM; sodium chloride 100 mM; EDTA 1 mM; DTT 5 mM; EDTA 90%; DTT 10%

sample_conditions_1: ionic strength: 0.1 M; pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
3D HNCOsample_1isotropicsample_conditions_1
3D HNCAsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D C(CO)NHsample_1isotropicsample_conditions_1
3D HCCH-TOCSYsample_1isotropicsample_conditions_1
3D 1H-15N TOCSYsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-13C NOESYsample_1isotropicsample_conditions_1
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
2D 1H-13C HSQCsample_1isotropicsample_conditions_1
3D HN(CO)CAsample_1isotropicsample_conditions_1

Software:

VNMRJ, Varian - collection

CcpNMR v2.1.5, CCPN - data analysis

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

ARIA v2.3, Linge, O, . - structure solution

NMR spectrometers:

  • Varian INOVA 600 MHz

Related Database Links:

PDB
GB ADM96668 ERO59479
REF WP_013316150 WP_022631959 WP_038900160 WP_038910128 WP_038921535

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