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Juvenile hormone binding protein complexed with 2-Methyl-1-(4-propyloxybenzyl)-benzimidazole
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3AOS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1M sodium acetate (pH 5.2), 1.7M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 4.96 75.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 127.672 α = 90 b = 127.672 β = 90 c = 156.722 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 95 PIXEL DECTRIS PILATUS 2M 2017-03-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.0000 Photon Factory BL-5A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.85 100 100 0.048 0.049 44.5 19.6 41938
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.9 0.834 0.857 0.936
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.851 36.958 41932 2072 99.957 0.187 0.1861 0.1963 0.2074 0.2159 RANDOM 34.421
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] -0.905 -0.452 -0.905 2.935
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 12.828 r_dihedral_angle_3_deg 11.274 r_lrange_it 6.945 r_lrange_other 6.905 r_dihedral_angle_1_deg 6.323 r_dihedral_angle_2_deg 5.533 r_scangle_it 5.233 r_scangle_other 5.128 r_scbond_it 3.435 r_mcangle_it 3.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 12.828 r_dihedral_angle_3_deg 11.274 r_lrange_it 6.945 r_lrange_other 6.905 r_dihedral_angle_1_deg 6.323 r_dihedral_angle_2_deg 5.533 r_scangle_it 5.233 r_scangle_other 5.128 r_scbond_it 3.435 r_mcangle_it 3.31 r_mcangle_other 3.31 r_scbond_other 3.195 r_mcbond_it 2.364 r_mcbond_other 2.362 r_angle_refined_deg 1.366 r_angle_other_deg 0.539 r_nbd_other 0.233 r_nbd_refined 0.214 r_symmetry_nbd_refined 0.212 r_symmetry_nbd_other 0.194 r_nbtor_refined 0.172 r_xyhbond_nbd_refined 0.146 r_symmetry_xyhbond_nbd_refined 0.082 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.075 r_symmetry_xyhbond_nbd_other 0.019 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1715 Nucleic Acid Atoms Solvent Atoms 186 Heterogen Atoms 47
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing