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Open data
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Basic information
Entry | Database: PDB / ID: 7vfc | ||||||
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Title | Crystal structure of cPMO2 | ||||||
![]() | cPMO2 | ||||||
![]() | OXIDOREDUCTASE / lytic polysaccharide monooxygenases | ||||||
Function / homology | COPPER (II) ION / DI(HYDROXYETHYL)ETHER![]() | ||||||
Biological species | compost metagenome (others) | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Liu, D. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Crystal structure of cPMO2 Authors: Liu, D. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 131.8 KB | Display | ![]() |
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PDB format | ![]() | 84.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.4 MB | Display | ![]() |
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Full document | ![]() | 1.4 MB | Display | |
Data in XML | ![]() | 13.7 KB | Display | |
Data in CIF | ![]() | 20.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6h1zS S: Starting model for refinement |
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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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1 |
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Unit cell |
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Components
#1: Protein | Mass: 23584.938 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) compost metagenome (others) / Production host: ![]() |
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#2: Chemical | ChemComp-PEG / |
#3: Chemical | ChemComp-CU / |
#4: Water | ChemComp-HOH / |
Has ligand of interest | Y |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.41 Å3/Da / Density % sol: 49 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion Details: 25% PEG3350,0.1 M Tris-HCl, pH8.5,0.2M ammonium acetate |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Jul 13, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.979 Å / Relative weight: 1 |
Reflection | Resolution: 1.21→29.82 Å / Num. obs: 67508 / % possible obs: 98.81 % / Redundancy: 6.6 % / Biso Wilson estimate: 9.47 Å2 / CC1/2: 0.928 / Net I/σ(I): 9.9 |
Reflection shell | Resolution: 1.21→1.254 Å / Num. unique obs: 67522 / CC1/2: 0.928 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6H1Z Resolution: 1.21→29.82 Å / SU ML: 0.0895 / Cross valid method: FREE R-VALUE / σ(F): 1.42 / Phase error: 17.2825 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: 14.51 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.21→29.82 Å
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Refine LS restraints |
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LS refinement shell |
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