+Open data
-Basic information
Entry | Database: PDB / ID: 5nnv | ||||||
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Title | Structure of a Bacillus subtilis Smc coiled coil middle fragment | ||||||
Components | Chromosome partition protein Smc,Chromosome partition protein Smc | ||||||
Keywords | CELL CYCLE / Smc Chromosome Segregation / DNA binding protein | ||||||
Function / homology | Function and homology information chromosome condensation / sister chromatid cohesion / chromosome segregation / chromosome / DNA replication / ATP hydrolysis activity / DNA binding / ATP binding / identical protein binding / cytoplasm Similarity search - Function | ||||||
Biological species | Bacillus subtilis (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 3.295 Å | ||||||
Authors | Diebold-Durand, M.-L. / Basquin, J. / Gruber, S. | ||||||
Citation | Journal: Mol. Cell / Year: 2017 Title: Structure of Full-Length SMC and Rearrangements Required for Chromosome Organization. Authors: Diebold-Durand, M.L. / Lee, H. / Ruiz Avila, L.B. / Noh, H. / Shin, H.C. / Im, H. / Bock, F.P. / Burmann, F. / Durand, A. / Basfeld, A. / Ham, S. / Basquin, J. / Oh, B.H. / Gruber, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5nnv.cif.gz | 172 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5nnv.ent.gz | 132.7 KB | Display | PDB format |
PDBx/mmJSON format | 5nnv.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/nn/5nnv ftp://data.pdbj.org/pub/pdb/validation_reports/nn/5nnv | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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3 |
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4 |
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Unit cell |
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-Components
#1: Protein | Mass: 32326.787 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bacillus subtilis (strain 168) (bacteria) Strain: 168 / Gene: smc, ylqA, BSU15940 / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: P51834 |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.55 Å3/Da / Density % sol: 51.8 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 8 Details: 11% PEG3350 50mM Tris pH8 4% MPD 200mM Calcium Acetate |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SLS / Beamline: X10SA / Wavelength: 0.9792 Å |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Feb 22, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9792 Å / Relative weight: 1 |
Reflection | Resolution: 3.295→87.125 Å / Num. obs: 37323 / % possible obs: 98.54 % / Redundancy: 3.6 % / Net I/σ(I): 12.33 |
Reflection shell | Resolution: 3.295→3.48 Å / Redundancy: 13.2 % / Rmerge(I) obs: 0.993 / Mean I/σ(I) obs: 2.8 / % possible all: 98.4 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 3.295→50 Å / Cross valid method: FREE R-VALUE / σ(F): 1.36 / Phase error: 33.44 / Stereochemistry target values: TWIN_LSQ_F
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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: 3.295→87.125 Å
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Refine LS restraints |
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LS refinement shell |
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