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Crystal structure of acinetobacter baumannii MurG
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F0K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 0.1M Tris pH8.8, 2.6M Sodium chloride 0.15M Ca(OAc)2
Crystal Properties Matthews coefficient Solvent content 5.53 77.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 182.909 α = 90 b = 182.909 β = 90 c = 156.549 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 104.15 PIXEL DECTRIS EIGER X 9M 2019-07-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 5C (4A) 1.000 PAL/PLS 5C (4A)
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 3.487 48.264 90.8 0.083 9.45 8.2 31262
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 3.487 3.57 0.489
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1F0K 3.487 48.259 31201 1511 90.611 0.262 0.2606 0.2515 0.2976 0.287 61.562
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] 0.001 0.001 -0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.848 r_dihedral_angle_3_deg 21.433 r_dihedral_angle_4_deg 17.481 r_lrange_other 12.908 r_lrange_it 12.907 r_mcangle_it 8.928 r_mcangle_other 8.927 r_scangle_it 8.688 r_scangle_other 8.687 r_dihedral_angle_1_deg 5.661
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.848 r_dihedral_angle_3_deg 21.433 r_dihedral_angle_4_deg 17.481 r_lrange_other 12.908 r_lrange_it 12.907 r_mcangle_it 8.928 r_mcangle_other 8.927 r_scangle_it 8.688 r_scangle_other 8.687 r_dihedral_angle_1_deg 5.661 r_mcbond_it 5.529 r_mcbond_other 5.528 r_scbond_it 5.164 r_scbond_other 5.164 r_angle_other_deg 2.36 r_angle_refined_deg 2.05 r_symmetry_xyhbond_nbd_refined 0.374 r_nbd_other 0.288 r_symmetry_nbd_other 0.278 r_nbd_refined 0.251 r_symmetry_nbd_refined 0.243 r_xyhbond_nbd_refined 0.224 r_xyhbond_nbd_other 0.207 r_nbtor_refined 0.195 r_symmetry_xyhbond_nbd_other 0.151 r_chiral_restr 0.128 r_symmetry_nbtor_other 0.096 r_bond_other_d 0.035 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_gen_planes_other 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7702 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data scaling PHASER phasing Coot model building