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Open data
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Basic information
Entry | Database: PDB / ID: 8jn0 | ||||||
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Title | N/F domain of alkaline amylase Amy703 | ||||||
![]() | Alpha-amylase | ||||||
![]() | HYDROLASE / N-terminus domain / CBM48 | ||||||
Function / homology | ![]() hydrolase activity, acting on glycosyl bonds / carbohydrate metabolic process Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Xiang, L. / Zhang, G. / Zhou, J. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Truncation of N-terminus domain of alkaline a-amylase to form a unique dimer leads to improved activity and stability and decreased calcium ion dependence Authors: Xiang, L. / Zhang, G. / Zhou, 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 | ![]() | 83.1 KB | Display | ![]() |
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PDB format | ![]() | 51.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 415.4 KB | Display | ![]() |
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Full document | ![]() | 415.5 KB | Display | |
Data in XML | ![]() | 6.7 KB | Display | |
Data in CIF | ![]() | 8.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | Similarity search - Function & homology ![]() |
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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: 10396.456 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Gene: amy / Production host: ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.57 Å3/Da / Density % sol: 52.22 % |
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Crystal grow | Temperature: 289.15 K / Method: vapor diffusion, sitting drop / Details: 0.2 M CaCl2, 0.1 M Hepes pH 7, 20% PEG 6000 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 S 6M / Detector: PIXEL / Date: Oct 20, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 |
Reflection | Resolution: 1.22→50 Å / Num. obs: 31184 / % possible obs: 100 % / Redundancy: 19 % / Biso Wilson estimate: 14.6357131513 Å2 / Rmerge(I) obs: 0.049 / Net I/σ(I): 60 |
Reflection shell | Resolution: 1.22→1.24 Å / Rmerge(I) obs: 1.085 / Num. unique obs: 1188 |
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Processing
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Refinement | Method to determine structure: ![]() Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 25.4852598585 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.22826373091→21.8680456558 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Origin x: 25.4308736816 Å / Origin y: -4.04841148508 Å / Origin z: -3.73424668653 Å
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Refinement TLS group | Selection details: all |