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The Crystal Structure of Iron, Sulfur-Dependent L-serine dehydratase from Legionella pneumophila subsp. pneumophila
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 50 mM Ammonium sulfate, 50 mM Bis-tris pH 6.5, 30 % Pentaerythritol ethoxylate, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3.24 62.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.705 α = 90 b = 77.151 β = 117.91 c = 56.158 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 100 CCD ADSC QUANTUM 315 mirrors 2006-06-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID APS 19-ID
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 2.66 38.58 98.6 0.104 10.1 8.3 12986 12986
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 2.66 2.76 93 0.665 1.9 4.9
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2.66 38.58 11671 11671 1280 98.33 0.17957 0.17435 0.17 0.2259 0.2119 RANDOM 69.511
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] -0.84 -0.02 2.24 -1.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.304 r_dihedral_angle_3_deg 22.327 r_dihedral_angle_4_deg 19.113 r_dihedral_angle_1_deg 11.776 r_scangle_it 3.5 r_scbond_it 2.131 r_angle_refined_deg 1.736 r_mcangle_it 1.421 r_mcbond_it 0.776 r_symmetry_vdw_refined 0.291
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.304 r_dihedral_angle_3_deg 22.327 r_dihedral_angle_4_deg 19.113 r_dihedral_angle_1_deg 11.776 r_scangle_it 3.5 r_scbond_it 2.131 r_angle_refined_deg 1.736 r_mcangle_it 1.421 r_mcbond_it 0.776 r_symmetry_vdw_refined 0.291 r_nbd_refined 0.254 r_xyhbond_nbd_refined 0.169 r_chiral_restr 0.117 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other 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 2258 Nucleic Acid Atoms Solvent Atoms 63 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling HKL-3000 phasing SHELXCD phasing SHELXD phasing SHELXE model building MLPHARE phasing SOLVE phasing RESOLVE phasing PHENIX phasing