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 19146

Title: Solution structure of RING domain of E3 ubiquitin ligase Doa10

Deposition date: 2013-04-06 Original release date: 2014-05-05

Authors: Lim, Jongsoo; Son, Woo-Sung

Citation: Ahn, Hee-Chul; Lim, Jongsoo; Son, Woo-Sung. "Solution structure of RING domain of E3 ubiquitin ligase Doa10"  .

Assembly members:
entity_1, polymer, 83 residues, 9220.431 Da.
ZINC ION, non-polymer, 65.409 Da.

Natural source:   Common Name: baker's yeast   Taxonomy ID: 4932   Superkingdom: Eukaryota   Kingdom: Fungi   Genus/species: Saccharomyces cerevisiae

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

Entity Sequences (FASTA):
entity_1: VANEETDTATFNDDAPSGAT CRICRGEATEDNPLFHPCKC RGSIKYMHESCLLEWVASKN IDISKPGADVKCDICHYPIQ FKT

Data sets:
Data typeCount
13C chemical shifts349
15N chemical shifts83
1H chemical shifts542

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1RING domain of E3 ubiquitin ligase Doa101
2ZINC ION_12

Entities:

Entity 1, RING domain of E3 ubiquitin ligase Doa10 83 residues - 9220.431 Da.

1   VALALAASNGLUGLUTHRASPTHRALATHR
2   PHEASNASPASPALAPROSERGLYALATHR
3   CYSARGILECYSARGGLYGLUALATHRGLU
4   ASPASNPROLEUPHEHISPROCYSLYSCYS
5   ARGGLYSERILELYSTYRMETHISGLUSER
6   CYSLEULEUGLUTRPVALALASERLYSASN
7   ILEASPILESERLYSPROGLYALAASPVAL
8   LYSCYSASPILECYSHISTYRPROILEGLN
9   PHELYSTHR

Entity 2, ZINC ION_1 - Zn - 65.409 Da.

1   ZN

Samples:

sample_1: MES, [U-100% 13C; U-100% 15N], 0.5 mM; H2O 90%; D2O 10%

sample_conditions_1: ionic strength: 0.05 M; pH: 6.5; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aliphaticsample_1isotropicsample_conditions_1
2D 1H-13C HSQC aromaticsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D HBHA(CO)NHsample_1isotropicsample_conditions_1
3D HCCH-TOCSYsample_1isotropicsample_conditions_1

Software:

CYANA, Guntert, Mumenthaler and Wuthrich - structure solution

AMBER, Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman - refinement

NMR spectrometers:

  • Varian INOVA 900 MHz
  • Varian INOVA 600 MHz

Related Database Links:

PDB
DBJ GAA24084
EMBL CAA54133 CAA86961
GB AHY75969 AJP39437 AJR36730 AJR36925 AJR37116
REF NP_012234
SP P40318
TPG DAA08517
AlphaFold P40318

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