6AUE

Artificial Metalloproteins Containing a Co4O4 Active Site - 2xm-S112Y-b


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2QCB 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2982.6 M ammonium sulfate, 0.1 M sodium acetate, pH 4.0
Crystal Properties
Matthews coefficientSolvent content
2.3447.32

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 57.945α = 90
b = 57.945β = 90
c = 184.565γ = 90
Symmetry
Space GroupI 41 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2017-05-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL9-21SSRLBL9-2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)CC (Half)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
11.3637.4599.80.0630.99914.210.234035

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 REPLACEMENTTHROUGHOUT2QCB1.3637.4532305168899.770.203830.202580.22896RANDOM20.803
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]
-0.16-0.160.32
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.134
r_dihedral_angle_4_deg14.119
r_dihedral_angle_3_deg10.943
r_dihedral_angle_1_deg7.272
r_long_range_B_refined6.792
r_angle_refined_deg6.315
r_long_range_B_other6.003
r_scangle_other4.043
r_scbond_it3.791
r_mcangle_it2.967
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.134
r_dihedral_angle_4_deg14.119
r_dihedral_angle_3_deg10.943
r_dihedral_angle_1_deg7.272
r_long_range_B_refined6.792
r_angle_refined_deg6.315
r_long_range_B_other6.003
r_scangle_other4.043
r_scbond_it3.791
r_mcangle_it2.967
r_mcangle_other2.967
r_scbond_other2.792
r_angle_other_deg2.465
r_mcbond_it2.111
r_mcbond_other2.098
r_chiral_restr0.253
r_bond_refined_d0.051
r_gen_planes_refined0.016
r_bond_other_d0.002
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms906
Nucleic Acid Atoms
Solvent Atoms74
Heterogen Atoms60

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing