☰ Navigation Tabs
Crystal structure of yeast 20S proteasome in complex with epoxyketone carmaphycin analogue 3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 297 30 mM of magnesium acetate, 100 mM of MES (pH 7.2) and 12% of MPD, vapor diffusion, temperature 297K
Crystal Properties Matthews coefficient Solvent content 3.85 68.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 135.35 α = 90 b = 300.88 β = 112.74 c = 144.25 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 2012-06-02 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 2.7 48 97.8 0.078 9.33 284264 -3 63.57
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 2.7 2.8 97.5 0.541 1.76
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 MOLECULAR REPLACEMENT THROUGHOUT 2.8 48 255047 12670 98.01 0.2119 0.2102 0.2149 0.2434 0.249 RANDOM 75.556
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] 3.27 -3.44 -9.28 3.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.582 r_dihedral_angle_3_deg 16.474 r_dihedral_angle_4_deg 14.575 r_dihedral_angle_1_deg 5.191 r_angle_refined_deg 0.999 r_scangle_it 0.825 r_scbond_it 0.462 r_mcangle_it 0.339 r_mcbond_it 0.177 r_chiral_restr 0.065
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.582 r_dihedral_angle_3_deg 16.474 r_dihedral_angle_4_deg 14.575 r_dihedral_angle_1_deg 5.191 r_angle_refined_deg 0.999 r_scangle_it 0.825 r_scbond_it 0.462 r_mcangle_it 0.339 r_mcbond_it 0.177 r_chiral_restr 0.065 r_bond_refined_d 0.006 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 49522 Nucleic Acid Atoms Solvent Atoms 415 Heterogen Atoms 222
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction PHENIX phasing