BMRB Entry 18098
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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR18098
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Title: Solution NMR Structure of mitochondrial succinate dehydrogenase assembly factor 2 from Saccharomyces cerevisiae, Northeast Structural Genomics Consortium Target YT682A
Deposition date: 2011-11-22 Original release date: 2011-12-05
Authors: Eletsky, Alexander; Lee, Hsiau-Wei; Lee, Dan; Kohan, Eitan; Hamilton, Keith; Acton, Thomas; Xiao, Rong; Everett, John; Prestegard, James; Montelione, Gaetano; Szyperski, Thomas
Citation: Eletsky, Alexander; Lee, Hsiau-Wei; Lee, Dan; Kohan, Eitan; Hamilton, Keith; Acton, Thomas; Xiao, Rong; Everett, John; Prestegard, James; Montelione, Gaetano; Szyperski, Thomas. "Solution NMR Structure of mitochondrial succinate dehydrogenase assembly factor 2 from Saccharomyces cerevisiae" To be published ., .-..
Assembly members:
YT682A, polymer, 109 residues, 13193.156 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
Entity Sequences (FASTA):
YT682A: MGHHHHHHSHMIKRTNEPLD
KKRARLIYQSRKRGILETDL
LLSGFAAKYLKKMNEEELEE
YDSLLNELDWDIYYWATKNF
KTSPLPDKWANSKLLKQLQE
FSENKEKEI
- assigned_chemical_shifts
- RDCs
- assigned_chemical_shifts
- spectral_peak_list
| Data type | Count |
| 13C chemical shifts | 488 |
| 15N chemical shifts | 111 |
| 1H chemical shifts | 784 |
| residual dipolar couplings | 152 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | YT682A | 1 |
Entities:
Entity 1, YT682A 109 residues - 13193.156 Da.
| 1 | MET | GLY | HIS | HIS | HIS | HIS | HIS | HIS | SER | HIS | ||||
| 2 | MET | ILE | LYS | ARG | THR | ASN | GLU | PRO | LEU | ASP | ||||
| 3 | LYS | LYS | ARG | ALA | ARG | LEU | ILE | TYR | GLN | SER | ||||
| 4 | ARG | LYS | ARG | GLY | ILE | LEU | GLU | THR | ASP | LEU | ||||
| 5 | LEU | LEU | SER | GLY | PHE | ALA | ALA | LYS | TYR | LEU | ||||
| 6 | LYS | LYS | MET | ASN | GLU | GLU | GLU | LEU | GLU | GLU | ||||
| 7 | TYR | ASP | SER | LEU | LEU | ASN | GLU | LEU | ASP | TRP | ||||
| 8 | ASP | ILE | TYR | TYR | TRP | ALA | THR | LYS | ASN | PHE | ||||
| 9 | LYS | THR | SER | PRO | LEU | PRO | ASP | LYS | TRP | ALA | ||||
| 10 | ASN | SER | LYS | LEU | LEU | LYS | GLN | LEU | GLN | GLU | ||||
| 11 | PHE | SER | GLU | ASN | LYS | GLU | LYS | GLU | ILE |
Samples:
NC5-GEL: YT682A, [5% 13C; U-100% 15N], 1.1 mM; MES 20 mM; sodium chloride 100 mM; calcium chloride 5 mM; DTT 10 mM; sodium azide 0.02%; DSS 50 uM
NC: YT682A, [U-100% 13C; U-100% 15N], 1.0 mM; MES 20 mM; sodium chloride 100 mM; calcium chloride 5 mM; DTT 10 mM; sodium azide 0.02%; DSS 50 uM
NC5: YT682A, [5% 13C; U-100% 15N], 1.1 mM; MES 20 mM; sodium chloride 100 mM; calcium chloride 5 mM; DTT 10 mM; sodium azide 0.02%; DSS 50 uM
NC5-PEG: YT682A, [5% 13C; U-100% 15N], 0.7 mM; MES 20 mM; sodium chloride 100 mM; calcium chloride 5 mM; DTT 10 mM; sodium azide 0.02%; DSS 50 uM; C12E5 PEG 4%; hexanol 4%
sample_conditions_1: pH: 6.5; pressure: 1 atm; temperature: 298 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 1H-15N HSQC | NC | isotropic | sample_conditions_1 |
| 2D 1H-13C CT-HSQC aliphatic | NC | isotropic | sample_conditions_1 |
| 3D HNCO | NC | isotropic | sample_conditions_1 |
| 3D CBCA(CO)NH | NC | isotropic | sample_conditions_1 |
| 3D HNCACB | NC | isotropic | sample_conditions_1 |
| 3D HBHA(CO)NH | NC | isotropic | sample_conditions_1 |
| 3D simutaneous 13C-aromatic,13C-aliphatic,15N edited 1H-1H NOESY | NC | isotropic | sample_conditions_1 |
| 3D HN(CA)CO | NC | isotropic | sample_conditions_1 |
| 2D 1H-13C CT-HSQC aromatic | NC | isotropic | sample_conditions_1 |
| 3D (H)CCH-TOCSY | NC | isotropic | sample_conditions_1 |
| 3D (H)CCH-COSY aliphatic | NC | isotropic | sample_conditions_1 |
| 3D (H)CCH-COSY aromatic | NC | isotropic | sample_conditions_1 |
| 1D 15N T1 | NC | isotropic | sample_conditions_1 |
| 1D 15N T2 | NC | isotropic | sample_conditions_1 |
| 2D 1H-13C CT-HSQC methyl | NC5 | isotropic | sample_conditions_1 |
| 2D J-resolved 1H-15N HSQC | NC5 | isotropic | sample_conditions_1 |
| 2D J-resolved 1H-15N HSQC | NC5-PEG | anisotropic | sample_conditions_1 |
| 2D J-resolved 1H-15N HSQC | NC5-GEL | anisotropic | sample_conditions_1 |
Software:
CNS v1.2, Brunger, Adams, Clore, Gros, Nilges and Read - refinement, structure solution, geometry optimization
CYANA v3.0, Guntert, Mumenthaler and Wuthrich - refinement, geometry optimization, structure solution
ASDP v1.0, Huang, Tejero, Powers and Montelione - data analysis, refinement
AutoAssign v2.3.0, Zimmerman, Moseley, Kulikowski and Montelione - data analysis, chemical shift assignment
NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing
XEASY v1.3.13, Bartels et al. - data analysis
PROSA v6.4, Guntert - processing
VNMRJ v2.2D, Varian - collection
TALOS+, Shen, Cornilescu, Delaglio and Bax - geometry optimization
CARA v1.8.4, Keller and Wuthrich - data analysis,peak picking,chemical shift assignment
NMR spectrometers:
- Varian INOVA 750 MHz
- Varian INOVA 600 MHz
- Varian INOVA 600 MHz
Related Database Links:
| PDB | |
| DBJ | GAA26256 |
| EMBL | CAA99081 CAY86219 |
| GB | AHY77242 AJP41474 AJT70893 AJT71384 AJT71872 |
| REF | NP_014570 |
| SP | A6ZND9 B3LIY9 Q08230 |
| TPG | DAA10712 |
Download simulated HSQC data in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts