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Open data
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Basic information
Entry | Database: PDB / ID: 3wdt | ||||||
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Title | The apo-form structure of PtLic16A from Paecilomyces thermophila | ||||||
![]() | Beta-1,3-1,4-glucanase | ||||||
![]() | HYDROLASE / 1 / 3-1 / 4-beta-glucanase / 3(4)-beta-glucanase / PtLic16A / beta-jellyroll fold | ||||||
Function / homology | ![]() licheninase activity / licheninase / glucan catabolic process / side of membrane / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Cheng, Y.S. / Huang, C.H. / Chen, C.C. / Huang, T.Y. / Ko, T.P. / Huang, J.W. / Wu, T.H. / Liu, J.R. / Guo, R.T. | ||||||
![]() | ![]() Title: Structural and mutagenetic analyses of a 1,3-1,4-beta-glucanase from Paecilomyces thermophila Authors: Cheng, Y.S. / Huang, C.H. / Chen, C.C. / Huang, T.Y. / Ko, T.P. / Huang, J.W. / Wu, T.H. / Liu, J.R. / Guo, R.T. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 244.7 KB | Display | ![]() |
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PDB format | ![]() | 196.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 456.5 KB | Display | ![]() |
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Full document | ![]() | 464.9 KB | Display | |
Data in XML | ![]() | 48.2 KB | Display | |
Data in CIF | ![]() | 70.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3wduC ![]() 3wdvC ![]() 3wdwC ![]() 3wdxC ![]() 3wdyC ![]() 2w39S C: citing same article ( S: Starting model for refinement |
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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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2 | ![]()
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3 | ![]()
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4 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 32224.182 Da / Num. of mol.: 4 / Fragment: UNP residues 19-314 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() #2: Chemical | ChemComp-SO4 / | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.48 Å3/Da / Density % sol: 50.31 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: 0.2M ammonium sulfate, 0.1M sodium cacodylate, 30%(w/v) PEG8000, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Sep 13, 2012 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.98→25 Å / Num. obs: 89077 / % possible obs: 100 % / Redundancy: 12.3 % / Rmerge(I) obs: 0.114 |
Reflection shell | Resolution: 1.98→2.05 Å / Redundancy: 12.4 % / Rmerge(I) obs: 0.494 / Mean I/σ(I) obs: 4.3 / Num. unique all: 8786 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 2W39 Resolution: 1.98→25 Å / σ(F): 2 / Stereochemistry target values: Engh & Huber
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Solvent computation | Bsol: 35.7697 Å2 | |||||||||||||||||||||||||
Displacement parameters | Biso mean: 20.9601 Å2
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Refinement step | Cycle: LAST / Resolution: 1.98→25 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.98→2.05 Å /
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