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Mouse Cereblon thalidomide binding domain, selenomethionine derivative
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 5.7 277 0.1M sodium acetate (pH 5.7), 0.2M sodium sulphate, 12% PEG3350, 30% glycerol, VAPOR DIFFUSION, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.76 55.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 118.112 α = 90 b = 118.112 β = 90 c = 118.112 γ = 90
Symmetry Space Group I 21 3
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 RAYONIX MX-225 2011-01-26
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 0.97911, 0.99513, 0.97941 SPring-8 BL41XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.93 50 100 20774 20774
Refinement Statistics Diffraction ID Structure Solution Method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD 1.93 34.1 19657 1066 99.71 0.19057 0.18935 0.21224 0.2398 RANDOM 41.317
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 r_dihedral_angle_2_deg 42.816 r_dihedral_angle_3_deg 17.032 r_dihedral_angle_4_deg 15.025 r_long_range_B_refined 7.46 r_long_range_B_other 7.347 r_dihedral_angle_1_deg 7.162 r_scangle_other 5.751 r_scbond_it 4.407 r_scbond_other 4.311 r_mcangle_it 3.595
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.816 r_dihedral_angle_3_deg 17.032 r_dihedral_angle_4_deg 15.025 r_long_range_B_refined 7.46 r_long_range_B_other 7.347 r_dihedral_angle_1_deg 7.162 r_scangle_other 5.751 r_scbond_it 4.407 r_scbond_other 4.311 r_mcangle_it 3.595 r_mcangle_other 3.594 r_mcbond_it 2.531 r_mcbond_other 2.531 r_angle_other_deg 2.362 r_angle_refined_deg 0.993 r_chiral_restr 0.076 r_gen_planes_other 0.016 r_gen_planes_refined 0.013 r_bond_refined_d 0.005 r_bond_other_d r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1612 Nucleic Acid Atoms Solvent Atoms 128 Heterogen Atoms 22
Software Software Software Name Purpose HKL-2000 data collection SHARP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling