BMRB Entry 11534

Title:
Solution structure of the GGQ domain of YaeJ protein from Escherichia coli
Deposition date:
2013-09-21
Original release date:
2013-12-23
Authors:
Nameki, Nobukazu; Enomoto, Mayu; Kogure, Hiroyuki; Tochio, Naoya; Guntert, Peter
Citation:

Citation: Kogure, Hiroyuki; Nameki, Nobukazu. "Identification of residues required for stalled-ribosome rescue in the codon-independent release factor YaeJ"  Nucleic Acids Res. ., .-. (2013).
PubMed: 24322300

Assembly members:

Assembly members:
entity, polymer, 121 residues, 13473.514 Da.

Natural source:

Natural source:   Common Name: E. coli   Taxonomy ID: 562   Superkingdom: Eubacteria   Kingdom: not available   Genus/species: Escherichia coli

Experimental source:

Experimental source:   Production method: cell free synthesis   Host organism: Escherichia coli   Vector: not applicable

Data sets:
Data typeCount
13C chemical shifts536
15N chemical shifts123
1H chemical shifts864

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1the GGQ domain of YaeJ protein1

Entities:

Entity 1, the GGQ domain of YaeJ protein 121 residues - 13473.514 Da.

Residues 110-121 represent a non-native affinity tag.

1   METILEVALILESERARGHISVALALAILE
2   PROASPGLYGLULEUGLUILETHRALAILE
3   ARGALAGLNGLYALAGLYGLYGLNHISVAL
4   ASNLYSTHRSERTHRALAILEHISLEUARG
5   PHEASPILEARGALASERSERLEUPROGLU
6   TYRTYRLYSGLUARGLEULEUALAALASER
7   HISHISLEUILESERSERASPGLYVALILE
8   VALILELYSALAGLNGLUTYRARGSERGLN
9   GLULEUASNARGGLUALAALALEUALAARG
10   LEUVALALAMETILELYSGLULEUTHRTHR
11   GLULYSLYSALAARGARGPROTHRARGSER
12   GLYPROSERSERGLYGLUASNLEUTYRPHE
13   GLN

Samples:

sample_1: GGQ domain, [U-13C; U-15N], 1 mM; TRIS, [U-2H], 20 mM; NaCl 100 mM; DTT, [U-2H], 1 mM; NaN3 0.02%; H2O, [U-2H], 90%; D2O 10%

sample_conditions_1: ionic strength: 120 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-13C NOESYsample_1isotropicsample_conditions_1

Software:

CYANA v3.93, Guntert et al. - structure solution

xwinnmr, Bruker Biospin - collection

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

OPALp v1.4, Koradi, Guntert, Billeter - refinement

Kujira, Kobayashi, N. - data analysis

NMRView, Johnson, One Moon Scientific - data analysis

NMR spectrometers:

  • Bruker Avance 700 MHz

Related Database Links:

PDB
DBJ BAI29068
EMBL CSE40362 CSE41074 CSE45877 CSE47218 CSE48511
GB EFZ51677 EGX13540 EIQ48412 EIQ48742 EIQ55363
REF WP_000635548

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