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Crystal structure of Escherichia coli PhnD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 298 2%v/v Tacsimate pH 6.0, 0.1M Bis-Tris pH 6.5, 20%w/v PEG 3,350, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.69 54.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 145.738 α = 90 b = 82.984 β = 103.2 c = 66.145 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 CCD RAYONIX MX225HE 2009-11-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97929 APS 31-ID
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 2.4 43 94.3 30016 28305
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.4 43 30016 26844 1435 93.89 0.20881 0.20567 0.26655 RANDOM 45.355
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] -2.21 -0.78 2.63 -0.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 45.181 r_dihedral_angle_4_deg 23.258 r_dihedral_angle_3_deg 19.057 r_dihedral_angle_1_deg 6.272 r_scangle_it 4.008 r_scbond_it 2.63 r_angle_refined_deg 1.673 r_mcangle_it 1.304 r_mcbond_it 0.703 r_chiral_restr 0.105
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 45.181 r_dihedral_angle_4_deg 23.258 r_dihedral_angle_3_deg 19.057 r_dihedral_angle_1_deg 6.272 r_scangle_it 4.008 r_scbond_it 2.63 r_angle_refined_deg 1.673 r_mcangle_it 1.304 r_mcbond_it 0.703 r_chiral_restr 0.105 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4789 Nucleic Acid Atoms Solvent Atoms 29 Heterogen Atoms 10
Software Software Software Name Purpose SPEC data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling