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Unprocessed Pyruvoyl Dependent Aspartate Decarboxylase with Histidine 11 Mutated to Alanine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AW8 PDB entry 1aw8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4 290 1.4-1.6M Ammonium Sulphate, 0.1M Citric Acid, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.5 50.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.952 α = 90 b = 70.952 β = 90 c = 217.081 γ = 120
Symmetry Space Group P 61 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 100 CCD ADSC QUANTUM 4 2002-04-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.1 1.488 SRS PX14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.9 25 100 0.087 31.23 33.5 26557 26521 2 16.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.94 100 0.26 9.79
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 MOLECULAR REPLACEMENT THROUGHOUT PDB entry 1aw8 1.9 23.44 26557 24507 1928 99.87 0.15005 0.15005 0.14847 0.1621 0.16963 0.1792 RANDOM 7.41
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] -0.03 -0.01 -0.03 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.659 r_scangle_it 3.572 r_scbond_it 2.719 r_angle_refined_deg 1.35 r_mcangle_it 1.221 r_angle_other_deg 0.77 r_mcbond_it 0.651 r_symmetry_vdw_other 0.365 r_nbd_other 0.263 r_symmetry_hbond_refined 0.225
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.659 r_scangle_it 3.572 r_scbond_it 2.719 r_angle_refined_deg 1.35 r_mcangle_it 1.221 r_angle_other_deg 0.77 r_mcbond_it 0.651 r_symmetry_vdw_other 0.365 r_nbd_other 0.263 r_symmetry_hbond_refined 0.225 r_nbd_refined 0.22 r_symmetry_vdw_refined 0.19 r_xyhbond_nbd_refined 0.183 r_chiral_restr 0.09 r_nbtor_other 0.084 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_gen_planes_other 0.005 r_bond_other_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1774 Nucleic Acid Atoms Solvent Atoms 237 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing