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Soft-SAD crystal structure of a pheromone binding protein from the honeybee Apis mellifera L.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 1.5M ammonium sulfate, 0.15M sodium citrate, pH5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.12 60.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.386 α = 90 b = 86.289 β = 90 c = 50.698 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 4 mirrors 2002-07-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.6 37.8 99.6 0.062 5.2 22274 5.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.68 99.6 0.305 2.4 3.8
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 1.6 20 19846 2234 99.5 0.17495 0.17147 0.1848 0.20645 0.2184 RANDOM 32.369
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] 2.5 -1 -1.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.688 r_dihedral_angle_3_deg 13.954 r_dihedral_angle_4_deg 9.103 r_dihedral_angle_1_deg 5.609 r_scangle_it 1.968 r_angle_other_deg 1.798 r_scbond_it 1.513 r_angle_refined_deg 1.355 r_mcangle_it 1.013 r_mcbond_it 0.798
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.688 r_dihedral_angle_3_deg 13.954 r_dihedral_angle_4_deg 9.103 r_dihedral_angle_1_deg 5.609 r_scangle_it 1.968 r_angle_other_deg 1.798 r_scbond_it 1.513 r_angle_refined_deg 1.355 r_mcangle_it 1.013 r_mcbond_it 0.798 r_symmetry_vdw_refined 0.261 r_nbd_refined 0.224 r_mcbond_other 0.199 r_nbd_other 0.185 r_xyhbond_nbd_refined 0.185 r_nbtor_refined 0.18 r_symmetry_vdw_other 0.17 r_symmetry_hbond_refined 0.14 r_nbtor_other 0.091 r_chiral_restr 0.076 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 907 Nucleic Acid Atoms Solvent Atoms 158 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALA data scaling SOLVE phasing