BMRB Entry 21054

Title:
Solution structure of the amphibian egg glycan Bv9 from Bombina variegata
Deposition date:
2014-01-24
Original release date:
2017-08-30
Authors:
Schubert, Mario; Allain, Frederic
Citation:

Citation: Aeschbacher, Thomas; Zierke, Mirko; Smiesko, Martin; Collot, Mayeul; Mallet, Jean-Maurice; Ernst, Beat; Allain, Frederic H-T; Schubert, Mario. "A Secondary Structural Element in a Wide Range of Fucosylated Glycoepitopes."  Chemistry 23, 11598-11610 (2017).
PubMed: 28654715

Assembly members:

Assembly members:
SUGAR_(3-MER), polymer, 4 residues, Formula weight is not available

Natural source:

Natural source:   Common Name: not available   Taxonomy ID: 191472   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Bombina variegata

Experimental source:

Experimental source:   Production method: obtained from a collaborator

Entity Sequences (FASTA):

Entity Sequences (FASTA):
SUGAR_(3-MER): XXXX

Data sets:
Data typeCount
13C chemical shifts28
1H chemical shifts38

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1Bv91

Entities:

Entity 1, Bv9 4 residues - Formula weight is not available

1   SPMAGNAGFUC

Samples:

sample_1: SUGAR (3-MER) 1 mM; D2O 100%

sample_2: SUGAR (3-MER) 1 mM; H2O 95%; D2O 5%

sample_conditions_1: pH: 7; temperature: 273 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-13C HSQCsample_1isotropicsample_conditions_1
2D 1H-1H TOCSYsample_1isotropicsample_conditions_1
2D 1H-1H TOCSYsample_2isotropicsample_conditions_1
2D 1H-1H NOESYsample_1isotropicsample_conditions_1
2D 1H-1H NOESYsample_2isotropicsample_conditions_1

Software:

TOPSPIN, Bruker Biospin - collection, processing

SPARKY, Goddard - chemical shift assignment, peak picking

CYANA, Guntert, Mumenthaler and Wuthrich - geometry optimization, structure solution

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

NMR spectrometers:

  • Bruker Avance 900 MHz