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Structure of transcription factor DksA2 from Pseudomonas aeruginosa
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 295 100 mM Hepes pH 7.5, 100 mM ammonium sulfate, 16.5% PEG 8000, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 3.93 68.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 169.453 α = 90 b = 169.453 β = 90 c = 92.32 γ = 120
Symmetry Space Group P 6 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 MARMOSAIC 300 mm CCD 2010-04-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 1.0 APS 21-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3.25 50 99.4 12184 12111 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 3.25 40 12111 611 99.49 0.25922 0.25655 0.2528 0.30953 0.3059 RANDOM 94.567
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] 5.07 2.53 5.07 -7.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.786 r_dihedral_angle_3_deg 22.183 r_dihedral_angle_4_deg 16.417 r_dihedral_angle_1_deg 5.496 r_scangle_it 1.21 r_angle_refined_deg 1.08 r_scbond_it 0.687 r_mcangle_it 0.52 r_nbtor_refined 0.299 r_mcbond_it 0.276
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.786 r_dihedral_angle_3_deg 22.183 r_dihedral_angle_4_deg 16.417 r_dihedral_angle_1_deg 5.496 r_scangle_it 1.21 r_angle_refined_deg 1.08 r_scbond_it 0.687 r_mcangle_it 0.52 r_nbtor_refined 0.299 r_mcbond_it 0.276 r_nbd_refined 0.222 r_symmetry_hbond_refined 0.177 r_symmetry_vdw_refined 0.169 r_xyhbond_nbd_refined 0.142 r_chiral_restr 0.07 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_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 3177 Nucleic Acid Atoms Solvent Atoms 21 Heterogen Atoms 15
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling