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PduA K26A S40Q mutant, from Salmonella enterica serovar Typhimurium LT2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3NGK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 298 2M AmSO4, 0.1M Cacodylate buffer pH 6.5, 0.2M NaCl, vapor diffusion, hanging drop, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.05 59.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.63 α = 90 b = 108.63 β = 90 c = 336.28 γ = 120
Symmetry Space Group P 65 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 PIXEL DECTRIS PILATUS 6M-F 2014-02-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C APS 24-ID-C
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 2.79 94.08 99.6 0.342 11.04 30282 -3 80.35
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 2.79 2.86 95.2 0.023 1.84
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 3NGK 2.79 94.08 30231 30231 3023 99.93 0.2309 0.2285 0.2454 0.2533 0.2767 RANDOM 60.71
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] 9.2065 9.2065 -18.413
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 21.55 t_omega_torsion 2.51 t_angle_deg 1.27 t_bond_d 0.01 t_dihedral_angle_d t_incorr_chiral_ct t_pseud_angle t_trig_c_planes t_gen_planes t_it
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 21.55 t_omega_torsion 2.51 t_angle_deg 1.27 t_bond_d 0.01 t_dihedral_angle_d t_incorr_chiral_ct t_pseud_angle t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion 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 5436 Nucleic Acid Atoms Solvent Atoms 26 Heterogen Atoms 25
Software Software Software Name Purpose XSCALE data scaling PHASER phasing BUSTER-TNT refinement PDB_EXTRACT data extraction BUSTER refinement