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Structures of SPOP-Substrate Complexes: Insights into Molecular Architectures of BTB-Cul3 Ubiquitin Ligases: SPOPMATHx-CiSBC2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HQH PDB entry 3HQH
Crystallization Crystal Properties Matthews coefficient Solvent content 2.3 46.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.281 α = 63 b = 48.1 β = 64.04 c = 49.86 γ = 62.89
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 2008-06-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.74 50 0.031 30.3 2 31963
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.74 1.8 0.102 9.5 1.9 2996
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 PDB entry 3HQH 1.74 25.57 29424 1582 96.74 0.17928 0.17717 0.1752 0.21777 0.2149 RANDOM 14.52
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] 0.37 -0.14 0.12 0.12 0.29 -0.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.119 r_dihedral_angle_4_deg 13.389 r_dihedral_angle_3_deg 12.601 r_dihedral_angle_1_deg 5.821 r_scangle_it 3.084 r_scbond_it 1.922 r_mcangle_it 1.223 r_angle_refined_deg 1.192 r_mcbond_it 0.776 r_nbtor_refined 0.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.119 r_dihedral_angle_4_deg 13.389 r_dihedral_angle_3_deg 12.601 r_dihedral_angle_1_deg 5.821 r_scangle_it 3.084 r_scbond_it 1.922 r_mcangle_it 1.223 r_angle_refined_deg 1.192 r_mcbond_it 0.776 r_nbtor_refined 0.309 r_nbd_refined 0.194 r_symmetry_vdw_refined 0.174 r_symmetry_hbond_refined 0.121 r_xyhbond_nbd_refined 0.116 r_chiral_restr 0.079 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 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 2238 Nucleic Acid Atoms Solvent Atoms 384 Heterogen Atoms 20
Software Software Software Name Purpose PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling