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Crystal structure of PAFB in complex with zinc
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6HAJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293.15 0.1 M BIS-TRIS pH 5.5, 25 % PEG 3350,
0.2 M NH4CH3COO
Crystal Properties Matthews coefficient Solvent content 2.06 40
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 32.942 α = 90 b = 32.942 β = 90 c = 42.825 γ = 120
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 EIGER2 X 9M 2019-09-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 2 0.98013 SOLEIL PROXIMA 2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.12 28.53 99.9 0.163 0.172 0.055 0.995 10.4 9.4 19859 7.96
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.12 1.18 99.5 1.014 1.095 0.405 0.691 7.3
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 6HAJ 1.123 28.53 19755 952 99.5 0.1818 0.1816 0.1795 0.1852 0.1875 RANDOM 13.04
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] -1.3681 -1.3681 2.7363
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 13 t_omega_torsion 3.28 t_angle_deg 1.07 t_bond_d 0.009 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 13 t_omega_torsion 3.28 t_angle_deg 1.07 t_bond_d 0.009 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion t_pseud_angle t_chiral_improper_torsion t_sum_occupancies t_utility_distance t_utility_angle t_utility_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 444 Nucleic Acid Atoms Solvent Atoms 48 Heterogen Atoms 23
Software Software Software Name Purpose BUSTER refinement Aimless data scaling PDB_EXTRACT data extraction pointless data reduction PHASER phasing