☰ Navigation Tabs
Crystal Structure of PDE10A with Novel Keto-Benzimidazole Inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4DDL PDB ENTRY 4DDL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 1.6M Ammonium Sulfate, 0.1M MES monohydrate, 10% v/v 1,4-Dioxane, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.14 70.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 252.659 α = 90 b = 252.659 β = 90 c = 252.659 γ = 90
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 RIGAKU SATURN 92 Osmic Varimax HF 2013-01-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E SUPERBRIGHT 1.5418
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 2.639 29.19 100 39231 39179
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.639 2.69 99.8
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 4DDL 2.639 29.19 37039 37039 1957 99.45 0.17237 0.17237 0.17107 0.19574 0.2171 RANDOM 50.92
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 37.897 r_dihedral_angle_4_deg 17.496 r_dihedral_angle_3_deg 15.881 r_long_range_B_refined 5.834 r_long_range_B_other 5.822 r_dihedral_angle_1_deg 5.301 r_scangle_other 2.718 r_mcangle_it 2.503 r_mcangle_other 2.503 r_scbond_it 1.769
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.897 r_dihedral_angle_4_deg 17.496 r_dihedral_angle_3_deg 15.881 r_long_range_B_refined 5.834 r_long_range_B_other 5.822 r_dihedral_angle_1_deg 5.301 r_scangle_other 2.718 r_mcangle_it 2.503 r_mcangle_other 2.503 r_scbond_it 1.769 r_scbond_other 1.723 r_mcbond_it 1.539 r_mcbond_other 1.534 r_angle_refined_deg 1.336 r_angle_other_deg 0.78 r_chiral_restr 0.091 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5063 Nucleic Acid Atoms Solvent Atoms 167 Heterogen Atoms 151
Software Software Software Name Purpose CrystalClear data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling