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CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 3B IN COMPLEX WITH IBMX
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F0J
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 277 Peg MME, MES, MAgnesium Sulfate, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.81 74.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 275.046 α = 90 b = 147.078 β = 109.84 c = 253.485 γ = 90
Symmetry Space Group C 1 2 1
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 MARRESEARCH 2002-04-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-BM 1.0 APS 17-BM
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 2.9 50 96.8 0.111 4.8 5.5 209980 203261 -3 65.4
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) 2.9 3 82.7 0.434 1.2 3.9 17306
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 (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 1F0J 2.9 30 209937 203114 10121 97.7 0.235 0.231 0.2282 0.249 0.2422 RANDOM 50.6
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] 9.88 -5.03 -20.683 10.8
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 20.33 c_scangle_it 3.9 c_mcangle_it 2.45 c_scbond_it 2.44 c_mcbond_it 1.46 c_angle_deg 1.18 c_improper_angle_d 0.8 c_bond_d 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 35544 Nucleic Acid Atoms Solvent Atoms 288 Heterogen Atoms 216
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing CNX refinement HKL-2000 data reduction