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- PDB-5ofl: Crystal structure of CbXyn10C variant E140Q/E248Q complexed with ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5ofl | |||||||||
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Title | Crystal structure of CbXyn10C variant E140Q/E248Q complexed with cellohexaose | |||||||||
![]() | Glycoside hydrolase family 48 | |||||||||
![]() | HYDROLASE / xylanase / GH10 family / cellulase | |||||||||
Function / homology | ![]() cellulose binding / cellulase activity / cellulose catabolic process / membrane Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Hakulinen, N. / Penttinen, L. / Rouvinen, J. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Insights into the roles of non-catalytic residues in the active site of a GH10 xylanase with activity on cellulose. Authors: Chu, Y. / Tu, T. / Penttinen, L. / Xue, X. / Wang, X. / Yi, Z. / Gong, L. / Rouvinen, J. / Luo, H. / Hakulinen, N. / Yao, B. / Su, X. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 156.3 KB | Display | ![]() |
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PDB format | ![]() | 125.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 734.2 KB | Display | ![]() |
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Full document | ![]() | 738.5 KB | Display | |
Data in XML | ![]() | 19 KB | Display | |
Data in CIF | ![]() | 28.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5ofjSC ![]() 5ofkC S: Starting model for refinement C: citing same article ( |
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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: 39371.340 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: Athe_1857 / Production host: ![]() ![]() | ||||
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#2: Polysaccharide | beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D- ...beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose / beta-cellohexaose | ||||
#3: Chemical | #4: Chemical | ChemComp-SO4 / #5: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.09 Å3/Da / Density % sol: 60.16 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 4.5 Details: 4% PEG20000, 0.2 M ammonium sulphate, 0.1 M sodium cacodalate at pH 4.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Feb 15, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.966 Å / Relative weight: 1 |
Reflection | Resolution: 1.871→131.402 Å / Num. obs: 40841 / % possible obs: 99.9 % / Redundancy: 7.1 % / CC1/2: 0.998 / Rrim(I) all: 0.117 / Net I/σ(I): 11.5 |
Reflection shell | Resolution: 1.871→1.903 Å / Mean I/σ(I) obs: 2.1 / Num. unique obs: 2006 / CC1/2: 0.759 / % possible all: 99 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5OFJ Resolution: 1.871→131.402 Å / SU ML: 0.22 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 18.19 / Stereochemistry target values: ML
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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: 1.871→131.402 Å
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Refine LS restraints |
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