+Open data
-Basic information
Entry | Database: PDB / ID: 4k0n | ||||||
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Title | Crystal structure of human CLIC1 C24A mutant | ||||||
Components | Chloride intracellular channel protein 1 | ||||||
Keywords | TRANSPORT PROTEIN / CLIC / Glutathione-S-Transferase fold / Chloride ion channel | ||||||
Function / homology | Function and homology information glutathione dehydrogenase (ascorbate) / Oxidoreductases; Acting on a sulfur group of donors / chloride transport / chloride channel activity / brush border / chloride channel complex / positive regulation of osteoblast differentiation / regulation of mitochondrial membrane potential / platelet aggregation / nuclear envelope ...glutathione dehydrogenase (ascorbate) / Oxidoreductases; Acting on a sulfur group of donors / chloride transport / chloride channel activity / brush border / chloride channel complex / positive regulation of osteoblast differentiation / regulation of mitochondrial membrane potential / platelet aggregation / nuclear envelope / nuclear membrane / vesicle / blood microparticle / cadherin binding / perinuclear region of cytoplasm / signal transduction / endoplasmic reticulum / mitochondrion / extracellular space / extracellular exosome / membrane / nucleus / plasma membrane / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.25 Å | ||||||
Authors | Phang, J.M. / Harrop, S.J. / Duff, A.P. / Wilk, K.E. / Curmi, P.M.G. | ||||||
Citation | Journal: To be Published Title: Crystal structure analysis of CLIC1 C24 mutants Authors: Phang, J.M. / Harrop, S.J. / Duff, A.P. / Wilk, K.E. / Curmi, P.M.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4k0n.cif.gz | 116.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4k0n.ent.gz | 88.2 KB | Display | PDB format |
PDBx/mmJSON format | 4k0n.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 4k0n_validation.pdf.gz | 438.6 KB | Display | wwPDB validaton report |
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Full document | 4k0n_full_validation.pdf.gz | 438.8 KB | Display | |
Data in XML | 4k0n_validation.xml.gz | 15.1 KB | Display | |
Data in CIF | 4k0n_validation.cif.gz | 24.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/k0/4k0n ftp://data.pdbj.org/pub/pdb/validation_reports/k0/4k0n | HTTPS FTP |
-Related structure data
Related structure data | 4jzqC 4k0gC 1k0mS 4k1d C: citing same article (ref.) S: Starting model for refinement |
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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: 27064.748 Da / Num. of mol.: 1 / Fragment: CLIC1 / Mutation: C24A Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: CLIC1, CLIC1 G6 NCC27, G6, NCC27 / Plasmid: pGEX-4T-1 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: O00299 |
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#2: Chemical | ChemComp-MLI / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.12 Å3/Da / Density % sol: 41.95 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 5 Details: 0.2M Sodium malonate, 20% PEG3350, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Australian Synchrotron / Beamline: MX2 / Wavelength: 0.95369 |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Jul 30, 2010 |
Radiation | Monochromator: Double Crystal Monochromator / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.95369 Å / Relative weight: 1 |
Reflection | Resolution: 1.25→42.92 Å / Num. all: 63800 / Num. obs: 63800 / % possible obs: 99.2 % / Observed criterion σ(F): 0 / Observed criterion σ(I): -4 / Redundancy: 5.5 % / Biso Wilson estimate: 8.3 Å2 / Rmerge(I) obs: 0.071 / Rsym value: 0.071 / Net I/σ(I): 12.9 |
Reflection shell | Resolution: 1.25→1.32 Å / Redundancy: 5.5 % / Rmerge(I) obs: 0.401 / Mean I/σ(I) obs: 3.7 / Num. unique all: 9225 / Rsym value: 0.401 / % possible all: 99.4 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1K0M Resolution: 1.25→41.421 Å / SU ML: 0.13 / Isotropic thermal model: anisotropic / Cross valid method: THROUGHOUT / σ(F): 1.35 / σ(I): 0 / Phase error: 13.69 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.73 Å / VDW probe radii: 1 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 38.352 Å2 / ksol: 0.334 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 1.25→41.421 Å
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Refine LS restraints |
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LS refinement shell |
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