BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 19510

Title: NMR structure of the Paracoccus denitrificans Z-subunit determined in the presence of ADP

Deposition date: 2013-09-20 Original release date: 2013-10-08

Authors: Serrano, Pedro; Geralt, Michael; Wuthrich, Kurt; Morales-Rios, Edga; Zarco-Zavala, Mariel; Garcia-Trejo, Jose; Dutta, Samit; JCSG, JCSG

Citation: Serrano, Pedro; Geralt, Michael; Wuthrich, Kurt; Dutta, Samit; Morales-Rios, Edga; Garcia-Trejo, Jose; Zarco-Zavala, Mariel. "NMR structure of the putative ATPase regulatory protein YP_916642.1 from Paracoccus denitrificans"  .

Assembly members:
Z-subunit, polymer, 104 residues, 11687.060 Da.
ADENOSINE-5'-DIPHOSPHATE, non-polymer, 427.201 Da.

Natural source:   Common Name: alpha proteobacteria   Taxonomy ID: 266   Superkingdom: Bacteria   Kingdom: not available   Genus/species: Paracoccus denitrificans

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

Entity Sequences (FASTA):
Z-subunit: MTTFDDRERAHEAKFAHDAE LNFKAEARRNRLLGEWAAGL LGKTGDDARAYALTVVTSDF DEPGDEDVFRKLAADLEGKA DEETIRAKMVELRATAREQI ISEI

Data sets:
Data typeCount
13C chemical shifts381
15N chemical shifts103
1H chemical shifts624

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1Z-subunit1
2ADP2

Entities:

Entity 1, Z-subunit 104 residues - 11687.060 Da.

1   METTHRTHRPHEASPASPARGGLUARGALA
2   HISGLUALALYSPHEALAHISASPALAGLU
3   LEUASNPHELYSALAGLUALAARGARGASN
4   ARGLEULEUGLYGLUTRPALAALAGLYLEU
5   LEUGLYLYSTHRGLYASPASPALAARGALA
6   TYRALALEUTHRVALVALTHRSERASPPHE
7   ASPGLUPROGLYASPGLUASPVALPHEARG
8   LYSLEUALAALAASPLEUGLUGLYLYSALA
9   ASPGLUGLUTHRILEARGALALYSMETVAL
10   GLULEUARGALATHRALAARGGLUGLNILE
11   ILESERGLUILE

Entity 2, ADP - 427.201 Da.

1   ADP

Samples:

sample_1: Z-subunit, [U-98% 13C; U-98% 15N], 1.5 mM; sodium chloride 50 mM; sodium phosphate 25 mM; sodium azide 5 mM; ADP 10 mM; H2O 95%; D2O 5%

sample_conditions_1: ionic strength: 0.083 M; pH: 6.0; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aliphaticsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aromaticsample_1isotropicsample_conditions_1
5D APSY CBCACONHsample_1isotropicsample_conditions_1
4D APSY HACANHsample_1isotropicsample_conditions_1
5D APSY HACACONHsample_1isotropicsample_conditions_1

Software:

DYANA - refinement

NMR spectrometers:

  • Bruker Avance 600 MHz
  • Bruker Avance 800 MHz

Related Database Links:

BMRB 18018
PDB
GB ABL70946
REF WP_011749137

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