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- PDB-2zf9: Crystal structure of a type III cohesin module from the celluloso... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2zf9 | ||||||
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Title | Crystal structure of a type III cohesin module from the cellulosomal ScaE cell-surface anchoring scaffoldin of Ruminococcus flavefaciens | ||||||
![]() | ScaE cell-surface anchored scaffoldin protein | ||||||
![]() | STRUCTURAL PROTEIN / Dockerin-binding module / anchoring module / alpha helix / beta flaps | ||||||
Function / homology | Immunoglobulin-like - #680 / membrane => GO:0016020 / Immunoglobulin-like / Sandwich / Mainly Beta / ScaE cell-surface anchored scaffoldin protein![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Frolow, F. / Bayer, E. / Alber, O. | ||||||
![]() | ![]() Title: Cohesin diversity revealed by the crystal structure of the anchoring cohesin from Ruminococcus flavefaciens. Authors: Alber, O. / Noach, I. / Rincon, M.T. / Flint, H.J. / Shimon, L.J.W. / Lamed, R. / Frolow, F. / Bayer, E.A. #1: ![]() Title: Preliminary X-ray characterization of a novel type of anchoring cohesin from the cellulosome of Ruminococcus flavefaciens Authors: Alber, O. / Noach, I. / Lamed, R. / Shimon, J.W.L. / Bayer, E.A. / Frolow, F. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 164.4 KB | Display | ![]() |
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PDB format | ![]() | 135.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 456.6 KB | Display | ![]() |
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Full document | ![]() | 460.1 KB | Display | |
Data in XML | ![]() | 37.3 KB | Display | |
Data in CIF | ![]() | 56 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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3 | ![]()
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4 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 21042.678 Da / Num. of mol.: 4 / Fragment: UNP residues 30-211 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-GOL / | #3: Chemical | ChemComp-CL / | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.49 Å3/Da / Density % sol: 50.52 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 5.5 Details: 0.1M Bis-Tris, 23% PEG 3350, 0.1M calcium chloride, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Jun 24, 2007 |
Radiation | Monochromator: Double crystal monochromator / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9792 Å / Relative weight: 1 |
Reflection | Resolution: 1.95→23.8 Å / Num. all: 60499 / Num. obs: 60499 / % possible obs: 98 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 6.73 % / Biso Wilson estimate: 25.8 Å2 / Rmerge(I) obs: 0.078 / Rsym value: 0.078 / Net I/σ(I): 29.9 |
Reflection shell | Resolution: 1.95→1.98 Å / Redundancy: 4.1 % / Rmerge(I) obs: 0.372 / Mean I/σ(I) obs: 2.26 / Num. unique all: 2738 / Rsym value: 0.372 / % possible all: 89.8 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 30.461 Å2
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Refine analyze | Luzzati coordinate error obs: 0.187 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.95→23.69 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.948→1.999 Å / Total num. of bins used: 20
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