4OY6

Structure of ScLPMO10B in complex with copper.


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.52930.2 M zinc acetate, 0.1 M sodium cacodylate, 9 % v/v 2-propanol
Crystal Properties
Matthews coefficientSolvent content
3.463.88

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 67.533α = 90
b = 67.533β = 90
c = 107.214γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2013-06-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID291.3ESRFID29

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
11.295094.20.08813.97.967598
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)
11.291.3663.20.5092.12.4

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 REPLACEMENTTHROUGHOUT1.2951.464129341894.040.12450.123650.14044RANDOM12.776
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]
0.080.080.08-0.25
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.233
r_sphericity_free25.466
r_dihedral_angle_4_deg15.606
r_dihedral_angle_3_deg11.033
r_sphericity_bonded9.871
r_dihedral_angle_1_deg6.709
r_long_range_B_refined3.17
r_long_range_B_other2.787
r_scangle_other2.32
r_rigid_bond_restr2.206
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.233
r_sphericity_free25.466
r_dihedral_angle_4_deg15.606
r_dihedral_angle_3_deg11.033
r_sphericity_bonded9.871
r_dihedral_angle_1_deg6.709
r_long_range_B_refined3.17
r_long_range_B_other2.787
r_scangle_other2.32
r_rigid_bond_restr2.206
r_scbond_it1.844
r_scbond_other1.843
r_angle_refined_deg1.425
r_mcangle_it1.36
r_mcangle_other1.36
r_mcbond_it1.083
r_mcbond_other1.081
r_angle_other_deg0.81
r_chiral_restr0.098
r_bond_refined_d0.01
r_gen_planes_refined0.007
r_bond_other_d0.001
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
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1464
Nucleic Acid Atoms
Solvent Atoms244
Heterogen Atoms19

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling