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Crystal Structure of H159A APAH complexed with N8-acetylspermidine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3Q9F PDB ENTRY 3Q9F
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 298 1.0 M sodium phosphate, 0.8 M potassium phosphate, 0.2 M lithium sulfate, 0.1 M CAPS pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.37 63.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 117.461 α = 98.47 b = 120.154 β = 94.41 c = 118.448 γ = 115.89
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 315r Kirpatrick Baez focusing mirrors 2010-06-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.97949 APS 24-ID-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.3 50 86.9 0.109 0.109 7.472 2.4 252823 219596 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.3 2.37 96.9 0.361 0.361 2.059 2.3 21913
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 (All) 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 PDB ENTRY 3Q9F 2.3 50 252823 219596 21958 86.9 0.1859 0.1859 0.1859 0.1874 0.2271 0.228 random 25.677
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] 3.189 0.925 -3.878 0.083 2.709 -3.272
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 2.918 c_scbond_it 1.975 c_mcangle_it 1.748 c_angle_deg 1.217 c_mcbond_it 1.109 c_bond_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 30756 Nucleic Acid Atoms Solvent Atoms 1752 Heterogen Atoms 192
Software Software Software Name Purpose SCALEPACK data scaling CNS refinement PDB_EXTRACT data extraction APS-24IDC data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing