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S25A mutant of pyruvoyl dependent aspartate decarboxylase
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 8 292 NH42SO4,Tris/HCL, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.9 57.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.056 α = 90 b = 73.056 β = 90 c = 111.114 γ = 90
Symmetry Space Group I 4 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 IMAGE PLATE RIGAKU RAXIS IV mirrors 1999-09-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.5418
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 1.95 30 95.2 0.04 36.6 9.3 11321 3 26.7
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 1.95 2.02 92.7 0.328 4.2
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 1aw8 1.95 24.5 11321 10244 518 95.13 0.16032 0.16032 0.15804 0.20492 0.2259 RANDOM 7.708
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] 0.22 0.22 -0.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.752 r_scangle_it 2.205 r_scbond_it 1.632 r_angle_refined_deg 1.486 r_mcangle_it 0.904 r_angle_other_deg 0.789 r_mcbond_it 0.602 r_symmetry_vdw_other 0.32 r_nbd_other 0.262 r_nbd_refined 0.215
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.752 r_scangle_it 2.205 r_scbond_it 1.632 r_angle_refined_deg 1.486 r_mcangle_it 0.904 r_angle_other_deg 0.789 r_mcbond_it 0.602 r_symmetry_vdw_other 0.32 r_nbd_other 0.262 r_nbd_refined 0.215 r_xyhbond_nbd_refined 0.188 r_symmetry_hbond_refined 0.181 r_symmetry_vdw_refined 0.143 r_chiral_restr 0.092 r_nbtor_other 0.086 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_gen_planes_other 0.005 r_bond_other_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 894 Nucleic Acid Atoms Solvent Atoms 144 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing