BMRB Entry 19014
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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR19014
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Title: Solution structure of the putative Ras interaction domain of AFD-1, isoform a from Caenorhabditis elegans
Deposition date: 2013-02-07 Original release date: 2013-03-04
Authors: Harris, R.; Hillerich, B.; Ahmed, M.; Bonanno, J.; Chamala, S.; Evans, B.; Lafleur, J.; Hammonds, J.; Washington, E.; Stead, M.; Love, J.; Attonito, J.; Seidel, R.; Liddington, R.; Weis, W.; Nelson, W.; Girvin, M.; Almo, S.
Citation: Harris, R.; Hillerich, B.; Ahmed, M.; Bonanno, J.; Chamala, S.; Evans, B.; Lafleur, J.; Hammonds, J.; Washington, E.; Stead, M.; Love, J.; Attonito, J.; Seidel, R.; Chook, Y.; Rout, M.; Liddington, R.; Weis, W.; Nelson, W.; Girvin, M.; Almo, S.. "Solution structure of the putative Ras interaction domain of AFD-1, isoform a from Caenorhabditis elegans" To be published ., .-..
Assembly members:
putative_Ras_interaction_domain_of_AFD-1_isoform_a, polymer, 108 residues, 11972.540 Da.
Natural source: Common Name: Caenorhabditis elegans Taxonomy ID: 6239 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Caenorhabditis elegans
Experimental source: Production method: recombinant technology Host organism: Escherichia coli
Entity Sequences (FASTA):
putative_Ras_interaction_domain_of_AFD-1_isoform_a: SMFGGSLKVYGGEIVPTRPY
VSILAEINENADRILGAALE
KYGLEHSKDDFILVEVSNDD
DRKSMSDLREIDGRPIPPTE
CPLFEMTARSGNGENGFDSF
LAIKRKPH
- assigned_chemical_shifts
| Data type | Count |
| 13C chemical shifts | 478 |
| 15N chemical shifts | 108 |
| 1H chemical shifts | 751 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | putative Ras interaction domain of AFD-1, isoform a from Caenorhabditis elegans | 1 |
Entities:
Entity 1, putative Ras interaction domain of AFD-1, isoform a from Caenorhabditis elegans 108 residues - 11972.540 Da.
| 1 | SER | MET | PHE | GLY | GLY | SER | LEU | LYS | VAL | TYR | ||||
| 2 | GLY | GLY | GLU | ILE | VAL | PRO | THR | ARG | PRO | TYR | ||||
| 3 | VAL | SER | ILE | LEU | ALA | GLU | ILE | ASN | GLU | ASN | ||||
| 4 | ALA | ASP | ARG | ILE | LEU | GLY | ALA | ALA | LEU | GLU | ||||
| 5 | LYS | TYR | GLY | LEU | GLU | HIS | SER | LYS | ASP | ASP | ||||
| 6 | PHE | ILE | LEU | VAL | GLU | VAL | SER | ASN | ASP | ASP | ||||
| 7 | ASP | ARG | LYS | SER | MET | SER | ASP | LEU | ARG | GLU | ||||
| 8 | ILE | ASP | GLY | ARG | PRO | ILE | PRO | PRO | THR | GLU | ||||
| 9 | CYS | PRO | LEU | PHE | GLU | MET | THR | ALA | ARG | SER | ||||
| 10 | GLY | ASN | GLY | GLU | ASN | GLY | PHE | ASP | SER | PHE | ||||
| 11 | LEU | ALA | ILE | LYS | ARG | LYS | PRO | HIS |
Samples:
sample_1: putative Ras interaction domain of AFD-1, isoform a, [U-100% 13C; U-100% 15N], 1.0 mM; sodium phosphate 20 mM; sodium chloride 50 mM; DTT 1 mM; EDTA 0.1 mM
sample_2: putative Ras interaction domain of AFD-1, isoform a, [U-100% 13C; U-100% 15N], 1.0 mM; sodium phosphate 20 mM; sodium chloride 50 mM; DTT 1 mM; EDTA 0.1 mM
sample_conditions_1: ionic strength: 70 mM; pH: 6.8; pressure: 1 atm; temperature: 298 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 15N HSQC | sample_1 | isotropic | sample_conditions_1 |
| 15N NOESY-HSQC | sample_1 | isotropic | sample_conditions_1 |
| 13C HSQC | sample_2 | isotropic | sample_conditions_1 |
| aromatic 13C HSQC | sample_2 | isotropic | sample_conditions_1 |
| 13C NOESY-HSQC | sample_2 | isotropic | sample_conditions_1 |
| 13C aromatic NOESY-HSQC | sample_2 | isotropic | sample_conditions_1 |
| HNCO | sample_1 | isotropic | sample_conditions_1 |
| HNCACO | sample_1 | isotropic | sample_conditions_1 |
| HNCA | sample_1 | isotropic | sample_conditions_1 |
| HNCOCA | sample_1 | isotropic | sample_conditions_1 |
| HNCACB | sample_1 | isotropic | sample_conditions_1 |
| CBCACONH | sample_1 | isotropic | sample_conditions_1 |
Software:
CNS v1.21, Brunger A. T. et.al. - refinement
VNMRJ v2.2D, Varian - collection
TOPSPIN v1.3 & 2.1, Bruker Biospin - collection
NMRPipe v7.5, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing
MDDNMR v2.2, (MDDNMR) Orekhov, Jaravine, Kazimierczuk - collection, processing
MDDGUI v1.0, (MDDGUI) Lemak, Gutmanas, Chitayat, Karra, Fares, Sunnerhagen, Arrowsmith - collection, processing
CCPN_Analysis, CCPN - data analysis
ARIA v2.3, Linge, O, . - data analysis
SIDER, Hansen - data analysis
X-PLOR NIH v2.32, Schwieters, Kuszewski, Tjandra and Clore - refinement, structure solution
NMR spectrometers:
- Varian Inova 600 MHz
- Bruker Avance 600 MHz
- Bruker Avance 700 MHz
Related Database Links:
| UNP | Q9BIC1 |
| PDB | |
| EMBL | CCD69313 CCD69315 CCD69316 CDO41086 |
| GB | AAD20441 |
| REF | NP_001021660 NP_001021661 NP_001293329 NP_490938 |
Download simulated HSQC data in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts