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X-ray Crystal Structure of Chemically Synthesized Crambin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 The native crambin crystals were grown from the aqueous solution by mixing a 2 ul aliquot of a
crambin (10 mg/ml in pH 8.0, 100mM HEPES buffer containing 150mM NaCl) and 2 ul of a 0.8 M succinic acid, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 104.924 α = 90 b = 104.924 β = 90 c = 104.924 γ = 90
Symmetry Space Group I 41 3 2
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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 1.0000 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.75 30 9519 9070
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.75 1.795
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-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 1.75 30 9070 449 92.75 0.16014 0.16014 0.15887 0.1703 0.18476 0.1875 RANDOM 22.323
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.268 r_dihedral_angle_4_deg 25.067 r_dihedral_angle_3_deg 11.381 r_dihedral_angle_1_deg 4.982 r_scangle_it 2.831 r_angle_other_deg 2.256 r_scbond_it 1.933 r_angle_refined_deg 1.491 r_mcangle_it 1.105 r_mcbond_it 0.977
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.268 r_dihedral_angle_4_deg 25.067 r_dihedral_angle_3_deg 11.381 r_dihedral_angle_1_deg 4.982 r_scangle_it 2.831 r_angle_other_deg 2.256 r_scbond_it 1.933 r_angle_refined_deg 1.491 r_mcangle_it 1.105 r_mcbond_it 0.977 r_nbd_refined 0.221 r_mcbond_other 0.205 r_nbd_other 0.193 r_symmetry_hbond_refined 0.175 r_xyhbond_nbd_refined 0.148 r_symmetry_vdw_other 0.134 r_nbtor_other 0.084 r_chiral_restr 0.063 r_xyhbond_nbd_other 0.055 r_bond_refined_d 0.014 r_symmetry_vdw_refined 0.014 r_bond_other_d 0.005 r_gen_planes_refined 0.005 r_gen_planes_other 0.001 r_nbtor_refined r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 325 Nucleic Acid Atoms Solvent Atoms 80 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement