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Crystal structure of PpcA K9E mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OS6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 3.5 M Ammonium sulfate pH adjusted to 6.5 with ammonium hydroxide;
0.25% deoxycholate in the drop, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.01 59.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 32.31 α = 90 b = 32.31 β = 90 c = 178.51 γ = 90
Symmetry Space Group P 43 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 CUSTOM-MADE 2004-04-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 1.03320 APS 19-BM
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 1.9 50 97.1 0.045 53.8 7.3 8023 -3
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 1.9 1.97 79.2 0.124 11 2.3 597
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 1os6 1.9 30 7106 754 96.08 0.18743 0.18396 0.1958 0.22043 0.2282 RANDOM 16.287
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] 0.37 0.37 -0.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.359 r_scangle_it 3.18 r_scbond_it 2.102 r_angle_refined_deg 1.533 r_mcangle_it 1.522 r_angle_other_deg 0.9 r_mcbond_it 0.762 r_symmetry_hbond_refined 0.49 r_nbd_refined 0.386 r_nbd_other 0.259
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.359 r_scangle_it 3.18 r_scbond_it 2.102 r_angle_refined_deg 1.533 r_mcangle_it 1.522 r_angle_other_deg 0.9 r_mcbond_it 0.762 r_symmetry_hbond_refined 0.49 r_nbd_refined 0.386 r_nbd_other 0.259 r_symmetry_vdw_other 0.257 r_symmetry_vdw_refined 0.201 r_xyhbond_nbd_refined 0.133 r_nbtor_other 0.084 r_chiral_restr 0.082 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_gen_planes_other 0.005 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 536 Nucleic Acid Atoms Solvent Atoms 55 Heterogen Atoms 172
Software Software Software Name Purpose REFMAC refinement CNS refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing