6AUL

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
2.3146.83

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 57.752α = 90
b = 57.752β = 90
c = 184.089γ = 90
Symmetry
Space GroupI 41 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2017-05-28MSINGLE 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
11.3637.3399.40.0630.99614.910.233716

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 REPLACEMENTTHROUGHOUT2QCB1.3637.3331936167099.090.180590.179850.19524RANDOM19.701
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]
-0.01-0.010.03
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg24.902
r_dihedral_angle_4_deg19.106
r_dihedral_angle_3_deg13.238
r_dihedral_angle_1_deg7.571
r_long_range_B_refined5.546
r_long_range_B_other5.513
r_scangle_other4.511
r_scbond_other3.316
r_scbond_it3.268
r_mcangle_it3.132
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg24.902
r_dihedral_angle_4_deg19.106
r_dihedral_angle_3_deg13.238
r_dihedral_angle_1_deg7.571
r_long_range_B_refined5.546
r_long_range_B_other5.513
r_scangle_other4.511
r_scbond_other3.316
r_scbond_it3.268
r_mcangle_it3.132
r_mcangle_other3.13
r_angle_refined_deg2.622
r_angle_other_deg2.554
r_mcbond_it2.136
r_mcbond_other2.113
r_chiral_restr0.194
r_bond_refined_d0.03
r_gen_planes_refined0.015
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 Atoms921
Nucleic Acid Atoms
Solvent Atoms76
Heterogen Atoms16

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing