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Crystal structure of Acinetobacter baumannii OccAB4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3SYS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 20% PEG 4000
0.1 M potassium chloride
0.02 M Tris pH 7.0
Crystal Properties Matthews coefficient Solvent content 4.18 70.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 170.303 α = 90 b = 90.555 β = 90 c = 101.668 γ = 90
Symmetry Space Group P 21 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 100 PIXEL DECTRIS PILATUS 2M 2014-07-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.920000 Diamond I04-1
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 2.2 67.62 99.8 0.126 11.6 7.4 80260
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 2.2 2.24 99.7 0.789 2.2 6.4
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 3SYS 2.2 50.01 78143 2055 99.66 0.2077 0.20665 0.2122 0.24782 0.2521 RANDOM 34.98
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] 1.93 -0.52 -1.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.593 r_dihedral_angle_4_deg 19.354 r_dihedral_angle_3_deg 15.198 r_dihedral_angle_1_deg 7.993 r_long_range_B_refined 5.311 r_long_range_B_other 5.311 r_scangle_other 3.108 r_angle_refined_deg 2.419 r_mcangle_it 2.124 r_mcangle_other 2.124
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.593 r_dihedral_angle_4_deg 19.354 r_dihedral_angle_3_deg 15.198 r_dihedral_angle_1_deg 7.993 r_long_range_B_refined 5.311 r_long_range_B_other 5.311 r_scangle_other 3.108 r_angle_refined_deg 2.419 r_mcangle_it 2.124 r_mcangle_other 2.124 r_scbond_it 2.025 r_scbond_other 2.025 r_mcbond_it 1.406 r_mcbond_other 1.406 r_angle_other_deg 1.155 r_chiral_restr 0.154 r_bond_refined_d 0.029 r_gen_planes_refined 0.012 r_bond_other_d 0.002 r_gen_planes_other 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6372 Nucleic Acid Atoms Solvent Atoms 318 Heterogen Atoms 112
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing