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Open data
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Basic information
Entry | Database: PDB / ID: 4n8f | ||||||
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Title | CcmL from Thermosynechococcus elongatus BP-1 | ||||||
![]() | Carbon dioxide concentrating mechanism protein | ||||||
![]() | STRUCTURAL PROTEIN / CcmL / stranded beta barrel / bacterial microcompartment vertex protein / carboxysome | ||||||
Function / homology | ![]() structural constituent of carboxysome shell / carboxysome / carbon fixation / photosynthesis Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Kimber, M.S. / Demers, R.J. | ||||||
![]() | ![]() Title: Interactions and structural variability of beta-carboxysomal shell protein CcmL. Authors: Keeling, T.J. / Samborska, B. / Demers, R.W. / Kimber, M.S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 199.2 KB | Display | ![]() |
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PDB format | ![]() | 161 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 480.1 KB | Display | ![]() |
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Full document | ![]() | 485.6 KB | Display | |
Data in XML | ![]() | 21.6 KB | Display | |
Data in CIF | ![]() | 30.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4n8xC ![]() 2qw7S C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 12377.911 Da / Num. of mol.: 5 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Strain: BP-1 / Gene: ccmL / Plasmid: pET28a / Production host: ![]() ![]() #2: Chemical | ChemComp-SO4 / #3: Chemical | ChemComp-MG / | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.06 Å3/Da / Density % sol: 40.24 % |
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Crystal grow | Temperature: 273 K / Method: vapor diffusion, sitting drop / pH: 6.6 Details: 1.8 M MgSO4, 100 mM MES, pH 6.6, VAPOR DIFFUSION, SITTING DROP, temperature 273K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Jan 23, 2008 |
Radiation | Monochromator: WHITE BEAM SLITS, CRYO-COOLED FIRST AND SAGITTALLY BENT SECOND CRYSTAL OF DOUBLE CRYSTAL MONOCHROMATOR (DCM), VERTICALLY FOCUSING MIRROR (VFM) Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97934 Å / Relative weight: 1 |
Reflection | Resolution: 2→67.57 Å / Num. all: 35620 / Num. obs: 35620 / % possible obs: 99.1 % / Observed criterion σ(F): -3 / Observed criterion σ(I): -3 / Redundancy: 6.5 % / Biso Wilson estimate: 28.7 Å2 / Rsym value: 0.099 / Net I/σ(I): 19.7 |
Reflection shell | Resolution: 2→2.07 Å / Redundancy: 3.8 % / Mean I/σ(I) obs: 2.6 / Num. unique all: 3181 / Rsym value: 0.421 / % possible all: 91 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB entry 2QW7 Resolution: 2→20 Å / Cor.coef. Fo:Fc: 0.967 / Cor.coef. Fo:Fc free: 0.941 / SU B: 10.028 / SU ML: 0.134 / Cross valid method: THROUGHOUT / ESU R: 0.171 / ESU R Free: 0.163 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 46.123 Å2
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Refinement step | Cycle: LAST / Resolution: 2→20 Å
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Refine LS restraints |
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