BMRB Entry 5194
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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR5194
MolProbity Validation Chart
NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
XML gzip file.
RDF gzip file.
All files associated with the entry
Citation: Fernandez, Imma; Arac, Demet; Ubach, Josep; Gerber, Stefan; Shin, Ok-ho; Gao, Yan; Anderson, Richard; Sudhof, Thomas; Rizo, Josep. "Three-dimensional Structure of the Synaptotagmin 1 C2B-domain: Synaptotagmin 1
as a Phospholipid Binding Machine " Neuron 32, 1057-1069 (2001).
PubMed: 11754837
Assembly members:
synaptotagmin, polymer, 152 residues, 40.078 Da.
CA, non-polymer, 40.078 Da.
Natural source: Common Name: Rat Taxonomy ID: 10116 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Rattus norvegicus
Experimental source: Production method: recombinant technology
Entity Sequences (FASTA):
synaptotagmin: QEKLGDICFSLRYVPTAGKL
TVVILEAKNLKKMDVGGLSD
PYVKIHLMQNGKRLKKKKTT
IKKNTLNPYYNESFSFEVPF
EQIQKVQVVVTVLDYDKIGK
NDAIGKVFVGYNSTGAELRH
WSDMLANPRRPIAQWHTLQV
EEEVDAMLAVKK
- assigned_chemical_shifts
| Data type | Count |
| 1H chemical shifts | 1150 |
| 13C chemical shifts | 715 |
| 15N chemical shifts | 161 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | Synaptotagmin I | 1 |
| 2 | CALCIUM ION, I | 2 |
| 3 | CALCIUM ION, II | 2 |
Entities:
Entity 1, Synaptotagmin I 152 residues - 40.078 Da.
| 1 | GLN | GLU | LYS | LEU | GLY | ASP | ILE | CYS | PHE | SER | ||||
| 2 | LEU | ARG | TYR | VAL | PRO | THR | ALA | GLY | LYS | LEU | ||||
| 3 | THR | VAL | VAL | ILE | LEU | GLU | ALA | LYS | ASN | LEU | ||||
| 4 | LYS | LYS | MET | ASP | VAL | GLY | GLY | LEU | SER | ASP | ||||
| 5 | PRO | TYR | VAL | LYS | ILE | HIS | LEU | MET | GLN | ASN | ||||
| 6 | GLY | LYS | ARG | LEU | LYS | LYS | LYS | LYS | THR | THR | ||||
| 7 | ILE | LYS | LYS | ASN | THR | LEU | ASN | PRO | TYR | TYR | ||||
| 8 | ASN | GLU | SER | PHE | SER | PHE | GLU | VAL | PRO | PHE | ||||
| 9 | GLU | GLN | ILE | GLN | LYS | VAL | GLN | VAL | VAL | VAL | ||||
| 10 | THR | VAL | LEU | ASP | TYR | ASP | LYS | ILE | GLY | LYS | ||||
| 11 | ASN | ASP | ALA | ILE | GLY | LYS | VAL | PHE | VAL | GLY | ||||
| 12 | TYR | ASN | SER | THR | GLY | ALA | GLU | LEU | ARG | HIS | ||||
| 13 | TRP | SER | ASP | MET | LEU | ALA | ASN | PRO | ARG | ARG | ||||
| 14 | PRO | ILE | ALA | GLN | TRP | HIS | THR | LEU | GLN | VAL | ||||
| 15 | GLU | GLU | GLU | VAL | ASP | ALA | MET | LEU | ALA | VAL | ||||
| 16 | LYS | LYS |
Entity 2, CALCIUM ION, I - Ca - 40.078 Da.
| 1 | CA |
Samples:
sample_1: synaptotagmin, [U-15N; U-13C], 1.3 mM; NaCl 150 mM; DTT 2 mM; MES 50 mM; CaCl2 20 mM; D2O 5%; H2O 95%
sample_2: synaptotagmin, [U-15N], 1.3 mM; NaCl 150 mM; DTT 2 mM; MES 50 mM; CaCl2 20 mM; D2O 5%; H2O 95%
sample_3: synaptotagmin, [U-15N], 0.4 mM; NaCl 150 mM; DTT 2 mM; MES 50 mM; EDTA 0.5 mM; D2O 5%; H2O 95%
sample_4: synaptotagmin, [U-10% 13C], 1 mM; NaCl 150 mM; DTT 2 mM; MES 50 mM; CaCl2 20 mM; D2O 5%; H2O 95%
sample_cond_1: pH: 6.3; temperature: 303 K; ionic strength: 150 mM; pressure: 1 atm
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 3D 15N-separated NOESY | not available | not available | sample_cond_1 |
| 3D-13C 15N-SEPARATED NOESY | not available | not available | sample_cond_1 |
| HNHA | not available | not available | sample_cond_1 |
| 1H/13C-HSQC | not available | not available | sample_cond_1 |
Software:
NMRPipe v1.8 - processing
VNMR v6.1 - collection
NMRVIEW v4.12 - data analysis
CNS v0.9 - refinement
NMR spectrometers:
- Varian INOVA 600 MHz
Related Database Links:
| BMRB | 17838 |
| PDB | |
| GB | ABA86948 ELW70523 EPY85161 ETE67808 KFO26676 |
| REF | XP_005955385 XP_007441326 XP_008933885 XP_009505833 XP_009699931 |
Download HSQC peak lists in one of the following formats:
CSV: Backbone
or all simulated peaks
SPARKY: Backbone
or all simulated peaks