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Crystal structure analysis of 1,3-propanediol oxidoreductase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 12% PEG 20K, 0.1 M MES, PH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.91 57.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.937 α = 90 b = 226.611 β = 92.91 c = 232.627 γ = 90
Symmetry Space Group P 1 21 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 2005-10-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.939 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.65 20 97.7 0.061 0.061 5.7 1.9 265874 253221 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.65 2.79 89.5 0.341 0.341 1.3 1.8
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 MOLECULAR REPLACEMENT THROUGHOUT 2.7 20 253221 240381 12840 97.74 0.20534 0.2029 0.1976 0.25094 0.2427 RANDOM 45.835
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] -0.13 -0.05 0.12 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.599 r_dihedral_angle_3_deg 19.369 r_dihedral_angle_4_deg 19.353 r_dihedral_angle_1_deg 5.292 r_angle_refined_deg 1.175 r_scangle_it 1.164 r_scbond_it 0.692 r_mcangle_it 0.407 r_nbtor_refined 0.301 r_mcbond_it 0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.599 r_dihedral_angle_3_deg 19.369 r_dihedral_angle_4_deg 19.353 r_dihedral_angle_1_deg 5.292 r_angle_refined_deg 1.175 r_scangle_it 1.164 r_scbond_it 0.692 r_mcangle_it 0.407 r_nbtor_refined 0.301 r_mcbond_it 0.24 r_nbd_refined 0.205 r_symmetry_vdw_refined 0.175 r_metal_ion_refined 0.142 r_symmetry_hbond_refined 0.136 r_xyhbond_nbd_refined 0.131 r_chiral_restr 0.079 r_bond_refined_d 0.01 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_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 57420 Nucleic Acid Atoms Solvent Atoms 908 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing