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Native precursor 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 5.5 292 NH42SO4, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 3.1 59.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.983 α = 90 b = 70.983 β = 90 c = 216.386 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 IMAGE PLATE RIGAKU RAXIS IV 1999-03-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE OTHER 1.5482
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 62.02 96.4 0.058 24.5 17.9 20348 2.5 24.8
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 2.01 89.3 0.29 3.1
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 1.95 62.02 24605 20348 1183 95.51 0.15941 0.15941 0.15762 0.1721 0.19522 0.2039 RANDOM 14.99
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] 0.9 0.45 0.9 -1.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.474 r_scangle_it 2.897 r_scbond_it 1.822 r_angle_refined_deg 1.425 r_mcangle_it 1.085 r_angle_other_deg 0.817 r_mcbond_it 0.652 r_symmetry_vdw_other 0.343 r_symmetry_hbond_refined 0.298 r_nbd_other 0.253
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.474 r_scangle_it 2.897 r_scbond_it 1.822 r_angle_refined_deg 1.425 r_mcangle_it 1.085 r_angle_other_deg 0.817 r_mcbond_it 0.652 r_symmetry_vdw_other 0.343 r_symmetry_hbond_refined 0.298 r_nbd_other 0.253 r_symmetry_vdw_refined 0.221 r_nbd_refined 0.207 r_xyhbond_nbd_refined 0.192 r_nbtor_other 0.114 r_chiral_restr 0.085 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_gen_planes_other 0.004 r_bond_other_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1755 Nucleic Acid Atoms Solvent Atoms 270 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing