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Catalytic Domain Of Human Phosphodiesterase 5A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.5 277 PEG 3000, sodium chloride, sodium phosphate-citrate, pH 4.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.52 51.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.411 α = 90 b = 96.411 β = 90 c = 79.026 γ = 120
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 2002-12-07 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.0, 1.282927, 1.283302, 1.169662 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 2.1 84.51 99.35 0.047 8.2 10.9 23081 23081 -3 -3
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 2.1 2.24 99.1
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 MAD THROUGHOUT 2.1 84.51 23081 23081 1227 99.35 0.20359 0.20164 0.1988 0.24125 0.2384 RANDOM 35.536
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] -1.29 -0.65 -1.29 1.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.603 r_scangle_it 3.211 r_scbond_it 2.116 r_angle_refined_deg 1.421 r_mcangle_it 1.278 r_angle_other_deg 1.152 r_symmetry_vdw_refined 0.664 r_mcbond_it 0.656 r_symmetry_hbond_refined 0.551 r_symmetry_vdw_other 0.412
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.603 r_scangle_it 3.211 r_scbond_it 2.116 r_angle_refined_deg 1.421 r_mcangle_it 1.278 r_angle_other_deg 1.152 r_symmetry_vdw_refined 0.664 r_mcbond_it 0.656 r_symmetry_hbond_refined 0.551 r_symmetry_vdw_other 0.412 r_metal_ion_refined 0.295 r_nbd_other 0.229 r_nbd_refined 0.221 r_xyhbond_nbd_refined 0.155 r_nbtor_other 0.088 r_chiral_restr 0.082 r_bond_refined_d 0.014 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_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 2444 Nucleic Acid Atoms Solvent Atoms 90 Heterogen Atoms 19
Software Software Software Name Purpose REFMAC refinement Blu-Ice data collection ELVES data scaling CNX phasing