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Structure of OBP1 from Varroa destructor, form P3<2>21
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 2/3 of the initial condition (0.2M Cadmium Chloride, 2.2 ammonium sulfate) + 1/3 of PEG II screen (0.2M calcium chloride, HEPES 0.1M pH 7,5; PEG 4000 30% w/v).
Crystal Properties Matthews coefficient Solvent content 2.5 50.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.8 α = 90 b = 53.8 β = 90 c = 91.67 γ = 120
Symmetry Space Group P 32 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER X 9M 2019-04-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 2 0.98011 SOLEIL PROXIMA 2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.81 46.6 100 0.0795 0.999 13.26 20 13957
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.81 1.95 100 1.07 0.742 1.87 20
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.81 46.59 13827 728 99.99 0.18832 0.18637 0.2001 0.22609 0.243 RANDOM 40.576
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] 0.02 0.01 0.02 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.214 r_dihedral_angle_3_deg 14.459 r_dihedral_angle_4_deg 8.86 r_long_range_B_refined 7.774 r_long_range_B_other 7.556 r_dihedral_angle_1_deg 6.012 r_scangle_other 5.534 r_scbond_it 3.916 r_mcangle_other 3.746 r_mcangle_it 3.745
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.214 r_dihedral_angle_3_deg 14.459 r_dihedral_angle_4_deg 8.86 r_long_range_B_refined 7.774 r_long_range_B_other 7.556 r_dihedral_angle_1_deg 6.012 r_scangle_other 5.534 r_scbond_it 3.916 r_mcangle_other 3.746 r_mcangle_it 3.745 r_scbond_other 3.654 r_mcbond_it 2.676 r_mcbond_other 2.621 r_angle_refined_deg 1.829 r_angle_other_deg 1.528 r_chiral_restr 0.093 r_bond_refined_d 0.015 r_gen_planes_refined 0.01 r_bond_other_d 0.003 r_gen_planes_other 0.001 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 Atoms Number Protein Atoms 1035 Nucleic Acid Atoms Solvent Atoms 99 Heterogen Atoms 13
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHENIX phasing