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- PDB-4n8u: Two-Domain Laccase from Streptomyces viridochromogenes at 2.4 A r... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4n8u | ||||||
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Title | Two-Domain Laccase from Streptomyces viridochromogenes at 2.4 A resolution AC629 | ||||||
![]() | Multicopper oxidase | ||||||
![]() | OXIDOREDUCTASE / TWO-DOMAIN LACCASE / MULTICOPPER BLUE PROTEIN | ||||||
Function / homology | ![]() hydroquinone:oxygen oxidoreductase activity / laccase / copper ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Gabdulkhakov, A. / Tischenko, S. / Yurevich, L. / Lisov, A. / Leontievsky, A. | ||||||
![]() | ![]() Title: Two-Domain Laccase from Streptomyces viridochromogenes at 2.4 A resolution AC629 Authors: Gabdulkhakov, A. / Tischenko, S. / Yurevich, L. / Lisov, A. / Leontievsky, A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 170.5 KB | Display | ![]() |
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PDB format | ![]() | 133.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 460.4 KB | Display | ![]() |
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Full document | ![]() | 470.7 KB | Display | |
Data in XML | ![]() | 31.4 KB | Display | |
Data in CIF | ![]() | 43.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3tasS 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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Unit cell |
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Components
#1: Protein | Mass: 30647.119 Da / Num. of mol.: 3 / Fragment: UNP residues 33-313 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Plasmid: pQE30 / Production host: ![]() ![]() #2: Chemical | ChemComp-CU / #3: Chemical | ChemComp-CL / #4: Chemical | ChemComp-TRS / | #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.15 Å3/Da / Density % sol: 42.84 % |
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Crystal grow | Temperature: 285 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 11% PEG 4000, 0.1M Tris- l, 0.1M NaCl, 1.3% polyacrylic acid 5100 sodium salt, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 285K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: RAYONIX MX-225 / Detector: CCD / Date: Sep 25, 2012 / Details: mirrors |
Radiation | Monochromator: Si-111 crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.91841 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→50 Å / Num. all: 31995 / Num. obs: 31212 / % possible obs: 97.6 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.45 % / Biso Wilson estimate: 20.42 Å2 / Rmerge(I) obs: 0.15 / Net I/σ(I): 7.98 |
Reflection shell | Resolution: 2.4→2.5 Å / Redundancy: 2.85 % / Rmerge(I) obs: 0.418 / Mean I/σ(I) obs: 2.63 / Num. unique all: 3607 / % possible all: 87.8 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3TAS Resolution: 2.4→42.95 Å / Occupancy max: 1 / Occupancy min: 1 / FOM work R set: 0.8889 / SU ML: 0.33 / σ(F): 2.05 / Phase error: 20.21 / Stereochemistry target values: ML
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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 max: 82.36 Å2 / Biso mean: 20.8567 Å2 / Biso min: 4.79 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.4→42.95 Å
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Refine LS restraints |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Total num. of bins used: 11
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