+Open data
-Basic information
Entry | Database: PDB / ID: 4kef | ||||||
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Title | Structure of Cofilin Mutant (cof1-159p) | ||||||
Components | Cofilin | ||||||
Keywords | Actin Binding Protein / Actin Depolymerization Factor | ||||||
Function / homology | Function and homology information actin filament fragmentation / actin cortical patch / actin filament severing / Golgi to plasma membrane protein transport / actin filament depolymerization / actin filament organization / nuclear matrix / endocytosis / actin filament binding / actin cytoskeleton ...actin filament fragmentation / actin cortical patch / actin filament severing / Golgi to plasma membrane protein transport / actin filament depolymerization / actin filament organization / nuclear matrix / endocytosis / actin filament binding / actin cytoskeleton / plasma membrane / cytoplasm Similarity search - Function | ||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.098 Å | ||||||
Authors | Kish-Trier, E. / Haarer, B. / Cingolani, G. / Amberg, D.C. | ||||||
Citation | Journal: To be Published Title: Structure of Cofilin Mutant (cof1-159p) Authors: Kish-Trier, E. / Haarer, B. / Cingolani, G. / Amberg, D.C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4kef.cif.gz | 96 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4kef.ent.gz | 74.8 KB | Display | PDB format |
PDBx/mmJSON format | 4kef.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 4kef_validation.pdf.gz | 414.5 KB | Display | wwPDB validaton report |
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Full document | 4kef_full_validation.pdf.gz | 414.5 KB | Display | |
Data in XML | 4kef_validation.xml.gz | 8.9 KB | Display | |
Data in CIF | 4kef_validation.cif.gz | 12.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ke/4kef ftp://data.pdbj.org/pub/pdb/validation_reports/ke/4kef | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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Unit cell |
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-Components
#1: Protein | Mass: 15831.506 Da / Num. of mol.: 1 / Mutation: K82D Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) Strain: ATCC 204508 / S288c / Gene: COF1, YLL050C, L0596 / Production host: Escherichia coli (E. coli) / References: UniProt: Q03048 |
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#2: 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: 1.94 Å3/Da / Density % sol: 36.73 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.4 Details: 20% PEG4000, 150mM NaCl, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X29A / Wavelength: 1 |
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Detector | Type: ADSC QUANTUM 315 / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.098→30 Å / Num. obs: 49213 / % possible obs: 99.77 % / Observed criterion σ(F): 2.8 / Observed criterion σ(I): 2.8 / Redundancy: 4.2 % / Biso Wilson estimate: 10.45 Å2 / Rsym value: 0.076 / Net I/σ(I): 2.8 |
Reflection shell | Resolution: 1.098→1.14 Å / Redundancy: 2.3 % / Mean I/σ(I) obs: 2.8 / Num. unique all: 205008 / Rsym value: 0.345 / % possible all: 98.99 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.098→28.697 Å / WRfactor Rfree: 0.1443 / WRfactor Rwork: 0.1265 / SU ML: 0.09 / σ(F): 0 / Phase error: 13.29 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.098→28.697 Å
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Refine LS restraints |
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LS refinement shell |
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