BMRB Entry 34176

Title:
NMR solution structure of murine CXCL12 gamma isoform
Deposition date:
2017-09-15
Original release date:
2018-10-02
Authors:
Laguri, C.; Lortat-Jacob, H.; SImorre, J.
Citation:

Citation: Prechoux, Aurelie; Simorre, Jean-Pierre; Lortat-Jacob, Hugues; Laguri, Cedric. "Deciphering the structural attributes of protein-heparan sulfate interactions using chemo-enzymatic approaches and NMR spectroscopy"  Glycobiology 31, 851-858 (2021).
PubMed: 33554262

Assembly members:

Assembly members:
entity_1, polymer, 98 residues, 11611.919 Da.

Natural source:

Natural source:   Common Name: Mouse   Taxonomy ID: 10090   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Mus musculus

Experimental source:

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli BL21(DE3)

Data typeCount
13C chemical shifts373
15N chemical shifts103
1H chemical shifts545

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1entity_11

Entities:

Entity 1, entity_1 98 residues - 11611.919 Da.

1   LYSPROVALSERLEUSERTYRARGCYSPRO
2   CYSARGPHEPHEGLUSERHISILEALAARG
3   ALAASNVALLYSHISLEULYSILELEUASN
4   THRPROASNCYSALALEUGLNILEVALALA
5   ARGLEULYSASNASNASNARGGLNVALCYS
6   ILEASPPROLYSLEULYSTRPILEGLNGLU
7   TYRLEUGLULYSALALEUASNLYSGLYARG
8   ARGGLUGLULYSVALGLYLYSLYSGLULYS
9   ILEGLYLYSLYSLYSARGGLNLYSLYSARG
10   LYSALAALAGLNLYSARGLYSASN

Samples:

sample_1: CXCL12 gamma isoform, [U-99% 13C; U-99% 15N], 1 ± 0.2 mM; Na Phosphate buffer 20 mM

sample_conditions_1: ionic strength: 20 mM; pH: 5.7; pressure: 1 atm; temperature: 303 K

Experiments:

NameSampleSample stateSample conditions
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-13C NOESYsample_1isotropicsample_conditions_1
3D HCCH-TOCSYsample_1isotropicsample_conditions_1
3D H(CCO)NHsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aromaticsample_1isotropicsample_conditions_1
3D 1H-13C NOESY methylssample_1isotropicsample_conditions_1

Software:

ARIA, Linge, O'Donoghue and Nilges - structure calculation

CNS, Brunger A. T. et.al. - refinement

CYANA, Guntert, Mumenthaler and Wuthrich - peak picking

CcpNMR, CCPN - chemical shift assignment

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

NMR spectrometers:

  • Varian 600 Direct Drive 600 MHz

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