6JU6

Aspergillus oryzae active-tyrosinase copper-depleted C92A mutant


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3W6W 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.229320% polyethylene glycol (PEG) 3350, 30mM NH4NO3
Crystal Properties
Matthews coefficientSolvent content
2.1141.87

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 54.277α = 90
b = 104.747β = 90
c = 154.321γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX300HE2016-07-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSPRING-8 BEAMLINE BL44XU0.900SPring-8BL44XU

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.55099.60.07526.67141249
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.51.5399.10.553.46.6

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE3W6W1.530141138708499.70.16410.16120.219RANDOM
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
Coordinate Error
Structure Solution MethodRefinement High ResolutionRefinement Low Resolution
367716.1
RMS Deviations
KeyRefinement Restraint Deviation
s_from_restr_planes0.3864
s_non_zero_chiral_vol0.0544
s_zero_chiral_vol0.0502
s_similar_adp_cmpnt0.0438
s_rigid_bond_adp_cmpnt0.0279
s_angle_d0.0179
s_bond_d0.0054
s_similar_dist
s_anti_bump_dis_restr
s_approx_iso_adps
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7003
Nucleic Acid Atoms
Solvent Atoms761
Heterogen Atoms4

Software

Software
Software NamePurpose
DENZOdata reduction
HKL-2000data scaling
PHASERphasing
SHELXLrefinement