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Catalytic Domain Of Human Phosphodiesterase 4B In Complex With Vardenafil
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 10 277 ammonium sulfate and lithium sulfate , pH 10.0, VAPOR DIFFUSION, SITTING DROP, temperature 277.0K
Crystal Properties Matthews coefficient Solvent content 2.52 51.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.841 α = 90 b = 94.423 β = 90 c = 108.755 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 93 CCD ADSC QUANTUM 210 2003-08-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.1 ALS 8.3.1
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 2.34 70.71 99.6 0.074 7.1 4 37567 37567
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 2.34 2.401 100 0.919 1.3 4.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 MOLECULAR REPLACEMENT THROUGHOUT 2.34 70.71 37567 37567 2002 99.58 0.21267 0.21019 0.2131 0.25944 0.256 RANDOM 25.733
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] -5.42 1.01 4.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 3.292 r_scangle_it 3.121 r_scbond_it 2.008 r_angle_refined_deg 1.703 r_mcangle_it 1.142 r_angle_other_deg 0.98 r_mcbond_it 0.597 r_symmetry_vdw_other 0.327 r_nbd_other 0.22 r_nbd_refined 0.217
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 3.292 r_scangle_it 3.121 r_scbond_it 2.008 r_angle_refined_deg 1.703 r_mcangle_it 1.142 r_angle_other_deg 0.98 r_mcbond_it 0.597 r_symmetry_vdw_other 0.327 r_nbd_other 0.22 r_nbd_refined 0.217 r_xyhbond_nbd_refined 0.147 r_metal_ion_refined 0.145 r_symmetry_vdw_refined 0.139 r_symmetry_hbond_refined 0.135 r_chiral_restr 0.118 r_nbtor_other 0.096 r_bond_refined_d 0.018 r_gen_planes_refined 0.009 r_gen_planes_other 0.007 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_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 5234 Nucleic Acid Atoms Solvent Atoms 46 Heterogen Atoms 72
Software Software Software Name Purpose REFMAC refinement Blu-Ice data collection ELVES data scaling EPMR phasing