+Open data
-Basic information
Entry | Database: PDB / ID: 1exr | ||||||
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Title | THE 1.0 ANGSTROM CRYSTAL STRUCTURE OF CA+2 BOUND CALMODULIN | ||||||
Components | CALMODULIN | ||||||
Keywords | METAL TRANSPORT / CALMODULIN / HIGH RESOLUTION / DISORDER | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Paramecium tetraurelia (eukaryote) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1 Å | ||||||
Authors | Wilson, M.A. / Brunger, A.T. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2000 Title: The 1.0 A crystal structure of Ca(2+)-bound calmodulin: an analysis of disorder and implications for functionally relevant plasticity Authors: Wilson, M.A. / Brunger, A.T. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1exr.cif.gz | 94.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1exr.ent.gz | 72.1 KB | Display | PDB format |
PDBx/mmJSON format | 1exr.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ex/1exr ftp://data.pdbj.org/pub/pdb/validation_reports/ex/1exr | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 16687.420 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Paramecium tetraurelia (eukaryote) / Plasmid: PKK233-3 / Production host: Escherichia coli (E. coli) / Strain (production host): JM109 / References: UniProt: P07463 | ||
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#2: Chemical | ChemComp-CA / #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 1.99 Å3/Da / Density % sol: 40 % | |||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 278 K / Method: vapor diffusion, hanging drop / pH: 5 Details: MPD, calcium chloride, sodium cacodylate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 278K | |||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ | |||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL9-2 / Wavelength: 0.886 |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Jul 21, 1999 / Details: MIRROR |
Radiation | Monochromator: DOUBLE CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.886 Å / Relative weight: 1 |
Reflection | Resolution: 1→50 Å / Num. obs: 78247 / % possible obs: 96.9 % / Observed criterion σ(I): 0 / Redundancy: 5.4 % / Rmerge(I) obs: 0.073 / Net I/σ(I): 17.4 |
Reflection shell | Resolution: 1→1.04 Å / Redundancy: 3.3 % / Rmerge(I) obs: 0.506 / Mean I/σ(I) obs: 2.1 / % possible all: 83.9 |
Reflection | *PLUS Highest resolution: 1 Å / Lowest resolution: 50 Å / Observed criterion σ(I): 0 / Redundancy: 5.4 % |
Reflection shell | *PLUS % possible obs: 83.9 % / Redundancy: 3.3 % / Num. unique obs: 6757 / Mean I/σ(I) obs: 2.1 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: UNPUBLISHED 1.1 A PARAMECIUM TETRAURELIA CALMODULIN Resolution: 1→500 Å / Num. parameters: 14894 / Num. restraintsaints: 22732 / Cross valid method: FREE R / σ(F): 0 / Stereochemistry target values: ENGH AND HUBER Details: ANISOTROPIC REFINEMENT REDUCED FREE R (NO CUTOFF) BY 9%
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Solvent computation | Solvent model: MOEWS & KRETSINGER, J.MOL.BIOL.91 (1973)201-228 | |||||||||||||||||||||||||||||||||
Refine analyze | Num. disordered residues: 36 / Occupancy sum hydrogen: 1089 / Occupancy sum non hydrogen: 1327 | |||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1→500 Å
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Refine LS restraints |
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Software | *PLUS Name: SHELXL-97 / Classification: refinement | |||||||||||||||||||||||||||||||||
Refinement | *PLUS Lowest resolution: 50 Å / Rfactor all: 0.1368 / Rfactor obs: 0.1345 / Rfactor Rwork: 0.134 | |||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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