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Complex of wild type E. coli alpha aspartate decarboxylase with its processing factor PanZ
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4CRY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 291 200 mM KSCN, 100 mM Bis-Tris propane pH 6.5, 20% v/v PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.46 50.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.863 α = 90 b = 85.863 β = 90 c = 80.055 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2014-10-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
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 1.16 29.28 99.6 0.077 9 5.1 99822
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) 1 1.16 1.18 93.7 0.395 2.1 4.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 4CRY 1.16 29.28 94485 4966 99.6 0.11458 0.11341 0.1105 0.13688 0.1351 RANDOM 17.859
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] 0.81 0.81 -1.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.77 r_sphericity_free 29.073 r_dihedral_angle_4_deg 16.179 r_sphericity_bonded 15.712 r_dihedral_angle_3_deg 12.038 r_rigid_bond_restr 9.893 r_dihedral_angle_1_deg 5.923 r_long_range_B_refined 5.47 r_long_range_B_other 5.469 r_scangle_other 4.878
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.77 r_sphericity_free 29.073 r_dihedral_angle_4_deg 16.179 r_sphericity_bonded 15.712 r_dihedral_angle_3_deg 12.038 r_rigid_bond_restr 9.893 r_dihedral_angle_1_deg 5.923 r_long_range_B_refined 5.47 r_long_range_B_other 5.469 r_scangle_other 4.878 r_scbond_it 3.729 r_scbond_other 3.692 r_mcangle_other 3.11 r_mcangle_it 3.109 r_angle_refined_deg 2.851 r_mcbond_it 2.363 r_mcbond_other 2.352 r_angle_other_deg 1.21 r_chiral_restr 0.164 r_bond_refined_d 0.034 r_gen_planes_refined 0.013 r_gen_planes_other 0.004 r_bond_other_d 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1993 Nucleic Acid Atoms Solvent Atoms 292 Heterogen Atoms 89
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing