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yCP beta5-A49T-A50V-double mutant in complex with carfilzomib
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RYP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.8 293 20 MM MGAC2, 13% MPD, PH 6.8, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K
Crystal Properties Matthews coefficient Solvent content 3.67 66.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 136.69 α = 90 b = 300.21 β = 112.79 c = 145.62 γ = 90
Symmetry Space Group P 1 21 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 PSI PILATUS 6M 2012-09-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.0 SLS X06SA
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 2.8 30 98.8 0.104 7.5 264946 261767 2 2
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 2.8 2.9 99.7 0.477 2.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1RYP 2.8 15 261767 248678 13089 98.94 0.186 0.18292 0.18153 0.1848 0.20945 0.2104 RANDOM 67.727
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] 3.49 -0.21 -6.04 1.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.012 r_sphericity_free 24.558 r_sphericity_bonded 15.557 r_dihedral_angle_3_deg 14.271 r_dihedral_angle_4_deg 13.535 r_dihedral_angle_1_deg 5.026 r_long_range_B_refined 3.875 r_long_range_B_other 3.856 r_mcangle_it 3.411 r_mcangle_other 3.411
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.012 r_sphericity_free 24.558 r_sphericity_bonded 15.557 r_dihedral_angle_3_deg 14.271 r_dihedral_angle_4_deg 13.535 r_dihedral_angle_1_deg 5.026 r_long_range_B_refined 3.875 r_long_range_B_other 3.856 r_mcangle_it 3.411 r_mcangle_other 3.411 r_scangle_other 3.175 r_mcbond_it 2.574 r_mcbond_other 2.574 r_scbond_it 2.537 r_scbond_other 2.537 r_angle_refined_deg 0.874 r_rigid_bond_restr 0.829 r_angle_other_deg 0.784 r_chiral_restr 0.05 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 49250 Nucleic Acid Atoms Solvent Atoms 256 Heterogen Atoms 347
Software Software Software Name Purpose XDS data scaling REFMAC refinement XDS data reduction XSCALE data scaling REFMAC phasing