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Native alpha-1-antitrypsin at 1.5 Angstrom (Cys232Ser)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6I7U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.75 294 0.1M malonate-imidazole-borate pH5.75, 25% PEG1500
Crystal Properties Matthews coefficient Solvent content 2.12 42.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 114.566 α = 90 b = 38.994 β = 103.88 c = 89.247 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 PIXEL DECTRIS PILATUS3 6M 2020-10-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.9795 Diamond I24
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.48 86.64 99.5 0.09 0.109 0.06 0.995 5.4 3.2 63873 21.37
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 1.48 1.51 99.9 1.414 1.695 0.923 0.297 1.3 3.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.48 55.61 1.34 63714 1996 99.09 0.1693 0.1685 0.1692 0.1948 0.1956 29.98
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 f_dihedral_angle_d 16.8186 f_angle_d 0.7317 f_chiral_restr 0.0642 f_plane_restr 0.0064 f_bond_d 0.0039
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2828 Nucleic Acid Atoms Solvent Atoms 325 Heterogen Atoms 13
Software Software Software Name Purpose PHENIX refinement Aimless data scaling autoPROC data processing XDS data reduction PHASER phasing