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Open data
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Basic information
Entry | Database: PDB / ID: 6k9d | ||||||
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Title | glycoside hydrolase family 12 (GH12) englucanase | ||||||
![]() | GH12 beta-1, 4-endoglucanase | ||||||
![]() | HYDROLASE / endoglucanase / beta-jelly-roll | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Hong, Y. / Tao, T. / Pengjun, S. / Jiaming, C. / Xiaoyu, W. / Chen, H. / Yingguo, B. / Bin, Y. | ||||||
![]() | ![]() Title: Substrates promiscuity of xyloglucanases and endoglucanases of glycoside hydrolase 12 family Authors: Hong, Y. / Tao, T. / Pengjun, S. / Jiaming, C. / Xiaoyu, W. / Chen, H. / Yingguo, B. / Bin, Y. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 60.3 KB | Display | ![]() |
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PDB format | ![]() | 46.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related 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: 24183.301 Da / Num. of mol.: 1 / Mutation: N18Y 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: 5.01 Å3/Da / Density % sol: 75.45 % |
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Crystal grow | Temperature: 298.15 K / Method: vapor diffusion, hanging drop Details: NfEG12A-N18Y was concentrated to 10 mg/ml in a buffer containing 100 mM citric acid-Na2HPO4 (pH 7.2). both proteins were crystallized in a mother liquid with 0.1 M citrate (pH 5.0) and 16% ...Details: NfEG12A-N18Y was concentrated to 10 mg/ml in a buffer containing 100 mM citric acid-Na2HPO4 (pH 7.2). both proteins were crystallized in a mother liquid with 0.1 M citrate (pH 5.0) and 16% (w/v) PEG 20000 using the hanging drop vapor diffusion method in 24-well plates. NfEG12A-N18Y crystals was transferred to a reservoir solution supplemented with 25% (v/v) ethylene glycol to grown. Obtained crystals were cryoprotected with 25% (v/v) 2-methyl-2,4-pentanediol. The crystals were mounted on a nylon loop and cooled immediately in liquid nitrogen prior to data collection. |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Jan 4, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.00919 Å / Relative weight: 1 |
Reflection | Resolution: 1.505→55.879 Å / Num. obs: 62640 / % possible obs: 79.95 % / Redundancy: 4.3 % / Net I/σ(I): 1.34 |
Reflection shell | Resolution: 1.5048→4.2789 Å / Num. unique obs: 23 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.505→55.879 Å
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Refine LS restraints |
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LS refinement shell |
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