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Open data
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Basic information
Entry | Database: PDB / ID: 8h4f | ||||||
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Title | Blasnase-T13A/P55F with D-asn | ||||||
![]() | L-asparaginase | ||||||
![]() | HYDROLASE / Mutant | ||||||
Function / homology | ![]() asparagine metabolic process / asparaginase activity / metal ion binding / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lu, F. / Wang, W. / Chi, H. / Ran, T. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Structure-based rational design of Bacillus licheniformis L-asparaginase with low/no D-asparaginase activity for a safer enzyme Authors: Lu, F. / Wang, W. / Chi, H. / Ran, 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 | ![]() | 149.1 KB | Display | ![]() |
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PDB format | ![]() | 113.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 464.2 KB | Display | ![]() |
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Full document | ![]() | 471.1 KB | Display | |
Data in XML | ![]() | 28.9 KB | Display | |
Data in CIF | ![]() | 42.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8h44C ![]() 8h45C ![]() 8h46C ![]() 8h47C ![]() 8h48C ![]() 8h49C ![]() 8h4aC ![]() 8h4bC ![]() 8h4cC ![]() 8h4dC ![]() 8h4eC ![]() 8h4gC ![]() 7c8xS S: Starting model for refinement C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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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: 36290.113 Da / Num. of mol.: 2 / Mutation: T13A, P55F Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | ChemComp-MG / #3: Chemical | ChemComp-FMT / #4: Chemical | #5: Water | ChemComp-HOH / | Has ligand of interest | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.41 Å3/Da / Density % sol: 63.9 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop / Details: sodium formate |
-Data collection
Diffraction | Mean temperature: 173 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Oct 29, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9791 Å / Relative weight: 1 |
Reflection | Resolution: 1.85→19.97 Å / Num. obs: 86412 / % possible obs: 99.9 % / Redundancy: 20 % / CC1/2: 1 / Rpim(I) all: 0.02 / Net I/σ(I): 23.6 |
Reflection shell | Resolution: 1.85→1.88 Å / Num. unique obs: 4499 / CC1/2: 0.538 / Rpim(I) all: 0.68 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 7C8X Resolution: 1.9→19.82 Å / Cross valid method: FREE R-VALUE Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Displacement parameters | Biso mean: 42.03 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.9→19.82 Å
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Refine LS restraints |
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