BMRB Entry 26931
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR26931
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Title: Backbone chemical shifts of the MBD2/3 methyl-cytosine binding domain from Ephydatia muelleri PubMed: 28094816
Deposition date: 2016-11-01 Original release date: 2021-07-22
Authors: Williams, David; Bilinovich, Stephanie
Citation: Cramer, Jason; Pohlmann, Deborah; Gomez, Fernando; Mark, Leslie; Kornegay, Benjamin; Hall, Chelsea; Siraliev-Perez, Edhriz; Walavalkar, Ninad; Sperlazza, Jeannette; Bilinovich, Stephanie; Prokop, Jeremy; Hill, April; Williams, David. "Methylation specific targeting of a chromatin remodeling complex from sponges to humans" Sci. Rep. 7, 40674-40674 (2017).
Assembly members:
EmMBD2, polymer, 70 residues, Formula weight is not available
1xmCpG-forward, polymer, 17 residues, Formula weight is not available
1xmCpG-reverse, polymer, 17 residues, Formula weight is not available
Natural source: Common Name: sponges Taxonomy ID: 6052 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Ephydatia muelleri
Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pET32
Entity Sequences (FASTA):
EmMBD2: GSLRVKGLPSGWKREVVVRK
NGQSAGKTDVYYFSPCGKKF
RSKPQIARFLGDAVDLTCFD
FSRAGSPGDG
1xmCpG-forward: GAGGCGCTXGGCGGCAG
1xmCpG-reverse: CTGCCGCXGAGCGCCTC
- assigned_chemical_shifts
| Data type | Count |
| 13C chemical shifts | 180 |
| 15N chemical shifts | 62 |
| 1H chemical shifts | 62 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | EmMBD2 | 1 |
| 2 | DNA, chain 1 | 2 |
| 3 | DNA, chain 2 | 3 |
Entities:
Entity 1, EmMBD2 70 residues - Formula weight is not available
| 1 | GLY | SER | LEU | ARG | VAL | LYS | GLY | LEU | PRO | SER | |
| 2 | GLY | TRP | LYS | ARG | GLU | VAL | VAL | VAL | ARG | LYS | |
| 3 | ASN | GLY | GLN | SER | ALA | GLY | LYS | THR | ASP | VAL | |
| 4 | TYR | TYR | PHE | SER | PRO | CYS | GLY | LYS | LYS | PHE | |
| 5 | ARG | SER | LYS | PRO | GLN | ILE | ALA | ARG | PHE | LEU | |
| 6 | GLY | ASP | ALA | VAL | ASP | LEU | THR | CYS | PHE | ASP | |
| 7 | PHE | SER | ARG | ALA | GLY | SER | PRO | GLY | ASP | GLY |
Entity 2, DNA, chain 1 17 residues - Formula weight is not available
X=mC
| 1 | DG | DA | DG | DG | DC | DG | DC | DT | 3MC | DG | ||||
| 2 | DG | DC | DG | DG | DC | DA | DG |
Entity 3, DNA, chain 2 17 residues - Formula weight is not available
X=mC
| 1 | DC | DT | DG | DC | DC | DG | DC | 3MC | DG | DA | ||||
| 2 | DG | DC | DG | DC | DC | DT | DC |
Samples:
sample_1: EmMBD2, [U-99% 13C; U-99% 15N], 0.5 mM; 1xmCpG-forward 0.5 mM; 1xmCpG-reverse 0.5 mM; sodium phosphate 10 mM
sample_conditions_1: ionic strength: 30 mM; pH: 6.5; pressure: 1 atm; temperature: 298 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 1H-15N HSQC | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCO | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCA | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCACB | sample_1 | isotropic | sample_conditions_1 |
| 3D CBCA(CO)NH | sample_1 | isotropic | sample_conditions_1 |
Software:
NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing
CcpNMR, CCPN - chemical shift assignment
NMR spectrometers:
- Bruker INOVA 700 MHz
Download HSQC peak lists in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts