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Crystal structure of ethanolamine utilization protein EutJ from Carboxydothermus hydrogenoformans
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 297 1.6 M Magnesium sulfate, 0.1 M MES pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 3.75 67.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.912 α = 90 b = 128.912 β = 90 c = 104.922 γ = 90
Symmetry Space Group P 42 21 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 ADSC QUANTUM 315r 2009-02-12 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97937, 0.97951 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 2.8 50 100 0.086 51.5 14.3 22341 22341 -3 69.5
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 2.8 2.85 100 0.533 7.9 14.7
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 MAD THROUGHOUT 2.8 50 22189 22189 1136 99.47 0.22931 0.2266 0.2276 0.27835 0.276 RANDOM 44.578
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] 1.45 1.45 -2.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.946 r_dihedral_angle_3_deg 19.956 r_dihedral_angle_4_deg 16.307 r_dihedral_angle_1_deg 6.633 r_scangle_it 3.986 r_scbond_it 2.259 r_angle_refined_deg 1.762 r_mcangle_it 1.263 r_mcbond_it 0.64 r_chiral_restr 0.099
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.946 r_dihedral_angle_3_deg 19.956 r_dihedral_angle_4_deg 16.307 r_dihedral_angle_1_deg 6.633 r_scangle_it 3.986 r_scbond_it 2.259 r_angle_refined_deg 1.762 r_mcangle_it 1.263 r_mcbond_it 0.64 r_chiral_restr 0.099 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 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 3889 Nucleic Acid Atoms Solvent Atoms 28 Heterogen Atoms 61
Software Software Software Name Purpose SBC-Collect data collection HKL-3000 phasing MLPHARE phasing DM model building SHELXD phasing RESOLVE model building ARP/wARP model building Coot model building REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling DM phasing RESOLVE phasing