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Imidazole-triggered RAS-specific subtilisin SUBT_BACAM complexed with the peptide EEYSAM
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SPB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 298 0.1 M TRIS pH 8.0, 0.2 M NaCl, 20% PEG 6K
Crystal Properties Matthews coefficient Solvent content 1.97 37.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.51 α = 90 b = 58.51 β = 90 c = 125.09 γ = 90
Symmetry Space Group P 41 21 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 IMAGE PLATE RIGAKU RAXIS IV++ 2017-08-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.5418
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 1.63 42.73 100 0.09 0.093 0.025 0.999 20.6 13.5 28012
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 1.63 1.66 99.8 0.777 0.808 0.222 0.872 13.2
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 1spb 1.63 41.41 26571 1367 99.99 0.1507 0.1493 0.149 0.1804 0.1802 RANDOM 13.424
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] -0.15 -0.15 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.455 r_dihedral_angle_3_deg 12.101 r_dihedral_angle_4_deg 7.761 r_dihedral_angle_1_deg 5.91 r_angle_other_deg 2.484 r_angle_refined_deg 1.715 r_chiral_restr 0.086 r_bond_other_d 0.037 r_bond_refined_d 0.012 r_gen_planes_other 0.012
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.455 r_dihedral_angle_3_deg 12.101 r_dihedral_angle_4_deg 7.761 r_dihedral_angle_1_deg 5.91 r_angle_other_deg 2.484 r_angle_refined_deg 1.715 r_chiral_restr 0.086 r_bond_other_d 0.037 r_bond_refined_d 0.012 r_gen_planes_other 0.012 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1898 Nucleic Acid Atoms Solvent Atoms 242 Heterogen Atoms 22
Software Software Software Name Purpose MOSFLM data reduction Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction MOLREP phasing