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- PDB-5aoz: High resolution SeMet structure of the third cohesin from Ruminoc... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5aoz | ||||||
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Title | High resolution SeMet structure of the third cohesin from Ruminococcus flavefaciens scaffoldin protein, ScaB | ||||||
![]() | PUTATIVE CELLULOSOMAL SCAFFOLDIN PROTEIN | ||||||
![]() | SUGAR BINDING PROTEIN / CELLULOSOME / COHESIN / DOCKERIN / SCAB | ||||||
Function / homology | ![]() polysaccharide catabolic process / carbohydrate binding / extracellular region Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Bule, P. / Carvalho, A.L. / Santos, H. / Fontes, C.M.G.A. / Najmudin, S. | ||||||
![]() | ![]() Title: Structural Characterization of the Third Cohesin from Ruminococcus Flavefaciens Scaffoldin Protein, Scab Authors: Bule, P. / Carvalho, A.L. / Santos, H. / Fontes, C.M.G.A. / Najmudin, 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 | ![]() | 75.2 KB | Display | ![]() |
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PDB format | ![]() | 60.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 422.9 KB | Display | ![]() |
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Full document | ![]() | 423.1 KB | Display | |
Data in XML | ![]() | 9.8 KB | Display | |
Data in CIF | ![]() | 14.5 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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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 18274.451 Da / Num. of mol.: 1 / Fragment: COHESIN, UNP RESIDUES 399-544 Source method: isolated from a genetically manipulated source Details: SELENOMETHIONINE DERIVATIVE / Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Chemical | ChemComp-GOL / |
#3: Water | ChemComp-HOH / |
Nonpolymer details | GLYCEROL (GOL): FROM THE CRYSTALLISATION BUFFER. SELENOMETHIONINE (MSE): SELENO-METHIONINE- ...GLYCEROL (GOL): FROM THE CRYSTALLIS |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.49 Å3/Da / Density % sol: 50.7 % / Description: NONE |
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Crystal grow | pH: 7 Details: 45 MG ML PROTEIN IN 0.1 M (NH4)2SO4, 20% PEG 4K, 15% GLYCEROL, pH 7.0 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Mar 13, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.8726 Å / Relative weight: 1 |
Reflection | Resolution: 1.14→49.54 Å / Num. obs: 58923 / % possible obs: 99.9 % / Observed criterion σ(I): 0 / Redundancy: 10.3 % / Rmerge(I) obs: 0.07 / Net I/σ(I): 18.2 |
Reflection shell | Resolution: 1.14→1.81 Å / Redundancy: 9.6 % / Rmerge(I) obs: 1.33 / Mean I/σ(I) obs: 1.73 / % possible all: 99.3 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: NONE Resolution: 1.14→49.54 Å / Cor.coef. Fo:Fc: 0.984 / Cor.coef. Fo:Fc free: 0.978 / SU B: 0.835 / SU ML: 0.017 / Cross valid method: THROUGHOUT / ESU R: 0.024 / ESU R Free: 0.026 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. U VALUES REFINED INDIVIDUALLY. THE N- AND C-TERMINAL RESIDUES ARE DISORDERED. PDB_REDO WAS USED IN THE PENULTIMATE ROUND OF REFINEMENT.
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Solvent computation | Ion probe radii: 0.7 Å / Shrinkage radii: 0.7 Å / VDW probe radii: 1.1 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 16.307 Å2
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Refinement step | Cycle: LAST / Resolution: 1.14→49.54 Å
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Refine LS restraints |
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