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Open data
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Basic information
Entry | Database: PDB / ID: 8bqc | |||||||||
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Title | CjCel5B endo-glucanase | |||||||||
![]() | Endoglucanase | |||||||||
![]() | HYDROLASE / Carbohydrate / cellulase | |||||||||
Function / homology | ![]() cellulose binding / cellulase / cellulase activity / cellulose catabolic process Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | McGregor, N.G.S. / Davies, G.J. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: A Multiplexing Activity-Based Protein-Profiling Platform for Dissection of a Native Bacterial Xyloglucan-Degrading System. Authors: McGregor, N.G.S. / de Boer, C. / Foucart, Q.P.O. / Beenakker, T. / Offen, W.A. / Codee, J.D.C. / Willems, L.I. / Overkleeft, H.S. / Davies, G.J. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 129.3 KB | Display | ![]() |
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PDB format | ![]() | 96.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 420.7 KB | Display | ![]() |
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Full document | ![]() | 421.9 KB | Display | |
Data in XML | ![]() | 14.3 KB | Display | |
Data in CIF | ![]() | 21.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8bn7C ![]() 8bqaC ![]() 8bqbC ![]() 8oz1C ![]() 1tvnS S: Starting model for refinement C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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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: 33519.051 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.15 Å3/Da / Density % sol: 42.85 % / Description: Plate clusters |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop / pH: 7.5 Details: PS: 10 mg/mL in 5 mM Na-MOPS pH 7.5, 25 mM NaCl 1:1 with WS containing 0.2 M LiCl, 20% PEG3350 PH range: 5.5-7.5 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER2 XE 16M / Detector: PIXEL / Date: Apr 3, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9763 Å / Relative weight: 1 |
Reflection | Resolution: 1.57→42.05 Å / Num. obs: 35379 / % possible obs: 88.5 % / Redundancy: 6.5 % / CC1/2: 0.998 / Rmerge(I) obs: 0.147 / Rpim(I) all: 0.062 / Rrim(I) all: 0.16 / Net I/σ(I): 7.7 |
Reflection shell | Resolution: 1.57→1.6 Å / Redundancy: 6.9 % / Rmerge(I) obs: 2.693 / Mean I/σ(I) obs: 0.7 / Num. unique obs: 1983 / CC1/2: 0.32 / Rpim(I) all: 1.093 / Rrim(I) all: 2.91 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1tvn Resolution: 1.57→42.05 Å / Cor.coef. Fo:Fc: 0.969 / Cor.coef. Fo:Fc free: 0.949 / SU B: 2.909 / SU ML: 0.093 / Cross valid method: FREE R-VALUE / ESU R: 0.102 / ESU R Free: 0.104 Details: Hydrogens have been added in their 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 BULK SOLVENT | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 17.864 Å2
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Refinement step | Cycle: LAST / Resolution: 1.57→42.05 Å
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Refine LS restraints |
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LS refinement shell |
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