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Bombyx mori pheromone binding protein bound to bell pepper odorant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DQE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 295 PEG 4000, Tris, MgSO4, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.05 40.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.85 α = 90 b = 83.85 β = 90 c = 34.82 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F1 0.95 CHESS F1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.1 59.76 94 0.115 0.115 3.77 7245 6555 2.7 30.99
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT 1DQE 2.1 59.76 6866 311 94.74 0.205 0.203 0.2076 0.247 0.2473 RANDOM 32.677
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] -1.23 -1.23 2.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.253 r_scangle_it 6.505 r_scbond_it 4.474 r_mcangle_it 3.152 r_angle_refined_deg 2.918 r_mcbond_it 1.87 r_angle_other_deg 1.556 r_symmetry_vdw_refined 0.316 r_nbd_other 0.271 r_nbd_refined 0.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.253 r_scangle_it 6.505 r_scbond_it 4.474 r_mcangle_it 3.152 r_angle_refined_deg 2.918 r_mcbond_it 1.87 r_angle_other_deg 1.556 r_symmetry_vdw_refined 0.316 r_nbd_other 0.271 r_nbd_refined 0.27 r_symmetry_vdw_other 0.267 r_chiral_restr 0.195 r_xyhbond_nbd_refined 0.164 r_nbtor_other 0.118 r_symmetry_hbond_refined 0.064 r_bond_refined_d 0.046 r_gen_planes_other 0.024 r_gen_planes_refined 0.019 r_bond_other_d 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1038 Nucleic Acid Atoms Solvent Atoms 28 Heterogen Atoms 24
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection