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Human Phosphodiesterase 9 in complex with product 5'-GMP (E+P complex)
Crystallization Crystal Properties Matthews coefficient Solvent content 4.63 73.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.394 α = 90 b = 103.394 β = 90 c = 269.429 γ = 90
Symmetry Space Group P 41 21 2
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 ADSC QUANTUM 210 2006-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-ID
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 2.15 46.23 96.8 0.058 4.6 77975 77975 2 40
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) Number Reflections (All) 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 FOURIER SYNTHESIS THROUGHOUT 2.15 10 2 77999 69234 7800 97.09 0.17707 0.17457 0.1811 0.19879 0.2019 RANDOM 32.113
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] 0.75 0.75 -1.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.084 r_dihedral_angle_4_deg 24.037 r_dihedral_angle_3_deg 15.425 r_dihedral_angle_1_deg 5.389 r_scangle_it 4.913 r_scbond_it 3.888 r_angle_refined_deg 1.444 r_mcangle_it 1.114 r_angle_other_deg 1.031 r_mcbond_it 0.992
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.084 r_dihedral_angle_4_deg 24.037 r_dihedral_angle_3_deg 15.425 r_dihedral_angle_1_deg 5.389 r_scangle_it 4.913 r_scbond_it 3.888 r_angle_refined_deg 1.444 r_mcangle_it 1.114 r_angle_other_deg 1.031 r_mcbond_it 0.992 r_symmetry_vdw_other 0.253 r_nbd_refined 0.217 r_symmetry_vdw_refined 0.2 r_nbd_other 0.188 r_mcbond_other 0.188 r_nbtor_refined 0.18 r_xyhbond_nbd_refined 0.18 r_symmetry_hbond_refined 0.133 r_chiral_restr 0.091 r_nbtor_other 0.089 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5412 Nucleic Acid Atoms Solvent Atoms 478 Heterogen Atoms 47
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing