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- PDB-3w29: The high-resolution crystal structure of TsXylA, intracellular xy... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3w29 | |||||||||
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Title | The high-resolution crystal structure of TsXylA, intracellular xylanase from /Thermoanaerobacterium saccharolyticum JW/SL-YS485/: the complex of the E251A mutant with xylotetraose | |||||||||
![]() | Glycoside hydrolase family 10 | |||||||||
![]() | HYDROLASE / glycoside hydrolase / xylanase / thermophilic / xylotetraose | |||||||||
Function / homology | ![]() endo-1,4-beta-xylanase activity / endo-1,4-beta-xylanase / polysaccharide catabolic process / carbohydrate binding Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Han, X. / Gao, J. / Shang, N. / Huang, C.-H. / Ko, T.-P. / Zhu, Z. / Wiegel, J. / Shao, W. / Guo, R.-T. | |||||||||
![]() | ![]() Title: Structural and functional analyses of catalytic domain of GH10 xylanase from Thermoanaerobacterium saccharolyticum JW/SL-YS485 Authors: Han, X. / Gao, J. / Shang, N. / Huang, C.-H. / Ko, T.-P. / Chen, C.C. / Chan, H.C. / Cheng, Y.S. / Zhu, Z. / Wiegel, J. / Luo, W. / Guo, R.-T. / Ma, 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 | ![]() | 98.5 KB | Display | ![]() |
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PDB format | ![]() | 71.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 3w24SC ![]() 3w25C ![]() 3w26C ![]() 3w27C ![]() 3w28C ![]() 3w2b 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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1 |
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Unit cell |
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Components
#1: Protein | Mass: 38005.020 Da / Num. of mol.: 1 / Fragment: UNP residues 349-684 / Mutation: E251A,P326L Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: JW/SL-YS485 / Gene: Tsac_1459 / Plasmid: pET46 / Production host: ![]() ![]() |
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#2: Polysaccharide | beta-D-xylopyranose-(1-4)-beta-D-xylopyranose-(1-4)-beta-D-xylopyranose-(1-4)-alpha-D-xylopyranose Source method: isolated from a genetically manipulated source |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.76 Å3/Da / Density % sol: 55.41 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, sitting drop / pH: 8 Details: 0.1M Tris, 25% PEG 6000, 0.8M LiCl, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 295K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Jun 6, 2011 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 1.39→25 Å / Num. all: 83501 / Num. obs: 83501 / % possible obs: 97.7 % / Redundancy: 6.7 % / Rmerge(I) obs: 0.102 / Net I/σ(I): 20 |
Reflection shell | Resolution: 1.39→1.44 Å / Redundancy: 6.8 % / Rmerge(I) obs: 0.451 / Mean I/σ(I) obs: 4.2 / % possible all: 96 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3W24 Resolution: 1.39→25 Å / Occupancy max: 1 / Occupancy min: 1 / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Solvent computation | Bsol: 48.0257 Å2 | |||||||||||||||||||||||||
Displacement parameters | Biso max: 60.56 Å2 / Biso mean: 18.7593 Å2 / Biso min: 5.96 Å2 | |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.39→25 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.39→1.44 Å |