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- PDB-3nsy: The multi-copper oxidase CueO with six Met to Ser mutations (M358... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3nsy | ||||||
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Title | The multi-copper oxidase CueO with six Met to Ser mutations (M358S,M361S,M362S,M364S,M366S,M368S) | ||||||
![]() | Blue copper oxidase cueO | ||||||
![]() | OXIDOREDUCTASE / multicopper oxidas | ||||||
Function / homology | ![]() cuproxidase / oxidoreductase activity, acting on metal ions, oxygen as acceptor / oxidoreductase activity, acting on metal ions / detoxification of copper ion / oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor / response to copper ion / ferroxidase activity / outer membrane-bounded periplasmic space / periplasmic space / copper ion binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Roberts, S.A. / Montfort, W.R. / Singh, S.K. | ||||||
![]() | ![]() Title: Crystal structures of multicopper oxidase CueO bound to copper(I) and silver(I): functional role of a methionine-rich sequence. Authors: Singh, S.K. / Roberts, S.A. / McDevitt, S.F. / Weichsel, A. / Wildner, G.F. / Grass, G.B. / Rensing, C. / Montfort, W.R. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 113.3 KB | Display | ![]() |
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PDB format | ![]() | 83.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 3nscC ![]() 3nsdC ![]() 3nsfC ![]() 3nt0C ![]() 3od3C ![]() 1kv7S C: citing same article ( 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: 55749.281 Da / Num. of mol.: 1 / Mutation: M358S,M361S,M362S,M364S,M366S,M368S Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() | ||||
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#2: Chemical | ChemComp-CU / #3: Chemical | ChemComp-C2O / | #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.16 Å3/Da / Density % sol: 43.06 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 4.6 Details: 16% PEG 4000, 0.2 M ammonium acetate, 0.1 M sodium acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 325 mm CCD / Detector: CCD / Date: Jul 10, 2005 |
Radiation | Monochromator: unknown / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.3799 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→48 Å / Num. all: 54484 / Num. obs: 47535 / % possible obs: 97 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 1.9 % / Biso Wilson estimate: 38 Å2 / Rmerge(I) obs: 0.043 / Net I/σ(I): 11.2 |
Reflection shell | Resolution: 2.1→2.18 Å / Redundancy: 1.95 % / Rmerge(I) obs: 0.13 / Mean I/σ(I) obs: 4.7 / Num. unique all: 5245 / % possible all: 95 |
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Processing
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Refinement | Method to determine structure: UNnecessary Starting model: 1KV7 Resolution: 2.1→48 Å / Cor.coef. Fo:Fc: 0.957 / Cor.coef. Fo:Fc free: 0.93 / SU B: 4.383 / SU ML: 0.119 / Cross valid method: THROUGHOUT / ESU R Free: 0.189 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 33.35 Å2
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Refinement step | Cycle: LAST / Resolution: 2.1→48 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.1→2.154 Å / Total num. of bins used: 20
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