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Open data
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Basic information
Entry | Database: PDB / ID: 8h46 | ||||||
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Title | Blasnase-T13A/P55N with L-asn | ||||||
![]() | L-asparaginase![]() | ||||||
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Function / homology | ![]() asparagine metabolic process / ![]() ![]() ![]() 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 | ![]() | 149.6 KB | Display | ![]() |
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PDB format | ![]() | 114.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 8h44C ![]() 8h45C ![]() 8h47C ![]() 8h48C ![]() 8h49C ![]() 8h4aC ![]() 8h4bC ![]() 8h4cC ![]() 8h4dC ![]() 8h4eC ![]() 8h4fC ![]() 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
-Protein , 1 types, 2 molecules AB
#1: Protein | ![]() Mass: 35462.191 Da / Num. of mol.: 2 / Mutation: T13A, P55F Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() |
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-Non-polymers , 5 types, 481 molecules ![](data/chem/img/MG.gif)
![](data/chem/img/FMT.gif)
![](data/chem/img/ASN.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/FMT.gif)
![](data/chem/img/ASN.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-MG / #3: Chemical | ChemComp-FMT / ![]() #4: Chemical | ![]() #5: Chemical | ChemComp-GOL / | ![]() #6: Water | ChemComp-HOH / | ![]() |
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-Details
Has ligand of interest | N |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.48 Å3/Da / Density % sol: 64.69 % |
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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: ADSC QUANTUM 315r / Detector: CCD / Date: Nov 1, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.8→49.86 Å / Num. obs: 93735 / % possible obs: 100 % / Redundancy: 24.9 % / CC1/2: 0.999 / Rpim(I) all: 0.021 / Net I/σ(I): 17.9 |
Reflection shell | Resolution: 1.8→1.83 Å / Num. unique obs: 4565 / CC1/2: 0.72 / Rpim(I) all: 0.383 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 7C8X Resolution: 1.8→41.38 Å / Cross valid method: FREE R-VALUE Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Displacement parameters | Biso mean: 38.8 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.8→41.38 Å
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Refine LS restraints |
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