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Crystal structure of the proteasomal Rpn13 PRU-domain
Crystallization Crystal Properties Matthews coefficient Solvent content 2.24 45.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.428 α = 90 b = 56.223 β = 90 c = 63.242 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MAR CCD 165 mm 2007-03-13 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD MAR CCD 165 mm 2007-03-13 M SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MPG/DESY, HAMBURG BEAMLINE BW6 1.05 MPG/DESY, HAMBURG BW6 2 SYNCHROTRON MPG/DESY, HAMBURG BEAMLINE BW6 0.9793 MPG/DESY, HAMBURG BW6
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 1.67 15 99.9 0.051 16853 16853 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 1.67 1.7 99.5 0.272 2.9
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 SAD THROUGHOUT 1.7 14.95 16267 873 99.7 0.21453 0.21371 0.2094 0.23005 0.229 RANDOM 32.018
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] -0.05 -0.11 0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.461 r_dihedral_angle_3_deg 11.999 r_dihedral_angle_4_deg 11.537 r_dihedral_angle_1_deg 7.271 r_scangle_it 4.163 r_scbond_it 2.762 r_mcangle_it 1.852 r_angle_refined_deg 1.429 r_mcbond_it 1.132 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.461 r_dihedral_angle_3_deg 11.999 r_dihedral_angle_4_deg 11.537 r_dihedral_angle_1_deg 7.271 r_scangle_it 4.163 r_scbond_it 2.762 r_mcangle_it 1.852 r_angle_refined_deg 1.429 r_mcbond_it 1.132 r_nbtor_refined 0.305 r_nbd_refined 0.205 r_symmetry_vdw_refined 0.186 r_xyhbond_nbd_refined 0.153 r_symmetry_hbond_refined 0.109 r_chiral_restr 0.101 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 895 Nucleic Acid Atoms Solvent Atoms 79 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection DENZO data reduction SCALEPACK data scaling SHARP phasing