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Structure of the Clinically used Myxomaviral Serine Protease Inhibitor 1 (SERP-1)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3LW2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 295 0.2 M POTASSIUM CHLORIDE, 0.05 M
MAGNESIUM CHLORIDE HEXAHYDRATE, 0.05 M TRIS-HCL PH 7.5, 10% W/V
POLYETHYLENE GLYCOL (PEG) 4,000, VAPOR DIFFUSION, SITTING DROP,
TEMPERATURE 298K
Crystal Properties Matthews coefficient Solvent content 3.4 63.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.012 α = 90 b = 122.066 β = 94.88 c = 130.095 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 2015-11-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F1 0.98 CHESS F1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.5 20 97.1 0.041 11.4 3.4 51618 35.86
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.54 98.2 0.602 3.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 3LW2 2.5 19.83 1.34 46146 1990 86.8 0.209 0.207 0.2114 0.257 0.2612
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 16.482 f_angle_d 1.354 f_chiral_restr 0.08 f_bond_d 0.01 f_plane_restr 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7875 Nucleic Acid Atoms Solvent Atoms 58 Heterogen Atoms 90
Software Software Software Name Purpose PHENIX refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing PHENIX phasing