[English] 日本語
Yorodumi- PDB-1q80: Solution structure and dynamics of Nereis sarcoplasmic calcium bi... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1q80 | ||||||
---|---|---|---|---|---|---|---|
Title | Solution structure and dynamics of Nereis sarcoplasmic calcium binding protein | ||||||
Components | Sarcoplasmic calcium-binding protein | ||||||
Keywords | METAL BINDING PROTEIN / all-alpha | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Neanthes diversicolor (invertebrata) | ||||||
Method | SOLUTION NMR / distance geometry, simulated annealing | ||||||
Authors | Rabah, G. / Popescu, R. / Cox, J.A. / Engelborghs, Y. / Craescu, C.T. | ||||||
Citation | Journal: Febs J. / Year: 2005 Title: Solution structure and internal dynamics of NSCP, a compact calcium-binding protein. Authors: Rabah, G. / Popescu, R. / Cox, J.A. / Engelborghs, Y. / Craescu, C.T. #1: Journal: J.Biomol.NMR / Year: 1998 Title: 1H and 15N Resonance Assignment of the Calcium-bound Form of the Nereis Diversicolor Sarcoplasmic Ca(2+)-binding Protein Authors: Craescu, C.T. / Precheur, B. / van Riel, A. / Sakamoto, H. / Cox, J.A. / Engelborghs, Y. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1q80.cif.gz | 889.4 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1q80.ent.gz | 739.8 KB | Display | PDB format |
PDBx/mmJSON format | 1q80.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/q8/1q80 ftp://data.pdbj.org/pub/pdb/validation_reports/q8/1q80 | HTTPS FTP |
---|
-Related structure data
Similar structure data | |
---|---|
Other databases |
|
-Links
-Assembly
Deposited unit |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR ensembles |
|
-Components
#1: Protein | Mass: 19503.916 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Neanthes diversicolor (invertebrata) / Plasmid: pNDner04 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3)/pDIA17/pHSP234 / References: UniProt: P04571 |
---|
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR experiment |
|
-Sample preparation
Details | Contents: 1mM NSCP U-15N; 50mM Tris buffer, pH 6.5; 5mM CaCl2; 95% H2O, 5% D2O Solvent system: 95% H2O/5% D2O |
---|---|
Sample conditions | Ionic strength: 5mM CaCl2 / pH: 6.5 / Pressure: ambient / Temperature: 308 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M |
---|---|
Radiation wavelength | Relative weight: 1 |
NMR spectrometer | Type: Varian UNITY / Manufacturer: Varian / Model: UNITY / Field strength: 500 MHz |
-Processing
NMR software |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method: distance geometry, simulated annealing / Software ordinal: 1 Details: The structure calculation used 1859 NOE restraints, 188 hydrogen bond restraints and 262 dihedral angle restraints | ||||||||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations Conformers calculated total number: 17 / Conformers submitted total number: 17 |