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Catalytic Domain Of Human Phosphodiesterase 5A In Complex With Vardenafil
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 Sodium formate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.08 60.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.662 α = 90 b = 89.662 β = 90 c = 222.002 γ = 120
Symmetry Space Group P 65 2 2
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 2003-09-04 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 1.79 76.7 96.9 0.058 7.8 6 46654 46654
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 1.79 1.836 96.9 0.599 1.3 5.5 3490
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 1.79 76.7 46654 46654 2521 97.16 0.194 0.19327 0.2016 0.20788 0.2143 RANDOM 20.466
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] 0.27 0.14 0.27 -0.41
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 3.397 r_dihedral_angle_1_deg 2.987 r_scbond_it 2.253 r_angle_refined_deg 1.369 r_mcangle_it 1.161 r_angle_other_deg 0.856 r_mcbond_it 0.611 r_symmetry_vdw_other 0.277 r_nbd_other 0.224 r_nbd_refined 0.211
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 3.397 r_dihedral_angle_1_deg 2.987 r_scbond_it 2.253 r_angle_refined_deg 1.369 r_mcangle_it 1.161 r_angle_other_deg 0.856 r_mcbond_it 0.611 r_symmetry_vdw_other 0.277 r_nbd_other 0.224 r_nbd_refined 0.211 r_xyhbond_nbd_refined 0.164 r_symmetry_hbond_refined 0.134 r_symmetry_vdw_refined 0.113 r_chiral_restr 0.105 r_nbtor_other 0.085 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_gen_planes_other 0.004 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_refined 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 2637 Nucleic Acid Atoms Solvent Atoms 156 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement Blu-Ice data collection ELVES data scaling EPMR phasing