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Crystal structure of a protein from Aspergillus flavus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 298 0.1M Sodium citrate pH 5.6 0.1M -0.6M Nacl , 20% PEG4000
Crystal Properties Matthews coefficient Solvent content 2.99 58.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 160.438 α = 90 b = 62.202 β = 113.31 c = 113.166 γ = 90
Symmetry Space Group C 1 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 CCD RAYONIX MX300-HS 2018-03-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL15A1 1.0 NSRRC BL15A1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 25 97.6 0.055 0.065 0.035 14.3 3.3 85513
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 2 96.6 0.491 0.591 0.323 0.871 3.2
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 1.85 24.58 81154 4195 97.28 0.18946 0.18733 0.1948 0.23102 0.2388 RANDOM 30.823
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] -0.98 0.66 -0.12 0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.123 r_dihedral_angle_4_deg 21.622 r_dihedral_angle_3_deg 17.012 r_long_range_B_refined 8.027 r_long_range_B_other 8.006 r_dihedral_angle_1_deg 6.9 r_scangle_other 5.648 r_scbond_it 3.747 r_scbond_other 3.747 r_mcangle_it 3.485
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.123 r_dihedral_angle_4_deg 21.622 r_dihedral_angle_3_deg 17.012 r_long_range_B_refined 8.027 r_long_range_B_other 8.006 r_dihedral_angle_1_deg 6.9 r_scangle_other 5.648 r_scbond_it 3.747 r_scbond_other 3.747 r_mcangle_it 3.485 r_mcangle_other 3.485 r_mcbond_it 2.604 r_mcbond_other 2.601 r_angle_refined_deg 1.339 r_angle_other_deg 1.312 r_chiral_restr 0.071 r_gen_planes_refined 0.01 r_bond_refined_d 0.008 r_gen_planes_other 0.002 r_bond_other_d 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 6088 Nucleic Acid Atoms Solvent Atoms 779 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement HKL-2000 data scaling SHELX phasing PDB_EXTRACT data extraction HKL-2000 data reduction