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Crystal structure of DFA-IIIase from Arthrobacter chlorophenolicus A6 in complex with DFA-III
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 287 10% PEG 3350, 0.1M Sodium malonate (pH 4.2)
Crystal Properties Matthews coefficient Solvent content 2.19 43.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 116.466 α = 90 b = 77.175 β = 99.6 c = 139.718 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 IMAGE PLATE RIGAKU RAXIS IV++ 2014-07-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.54178
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 2.32 50 91.3 0.067 19 5.4 92637
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 2.32 2.36 0.361
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 THROUGHOUT 2.32 50 90013 4830 88.53 0.19078 0.18818 0.1956 0.24004 0.2437 RANDOM 43.825
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] -1.86 -1.07 4.61 -2.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.067 r_dihedral_angle_4_deg 16.112 r_dihedral_angle_3_deg 13.808 r_dihedral_angle_1_deg 7.417 r_long_range_B_refined 5.926 r_long_range_B_other 5.926 r_mcangle_it 3.846 r_mcangle_other 3.846 r_scangle_other 3.787 r_mcbond_it 2.419
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.067 r_dihedral_angle_4_deg 16.112 r_dihedral_angle_3_deg 13.808 r_dihedral_angle_1_deg 7.417 r_long_range_B_refined 5.926 r_long_range_B_other 5.926 r_mcangle_it 3.846 r_mcangle_other 3.846 r_scangle_other 3.787 r_mcbond_it 2.419 r_mcbond_other 2.417 r_scbond_it 2.378 r_scbond_other 2.378 r_angle_refined_deg 1.447 r_angle_other_deg 0.975 r_chiral_restr 0.085 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 19810 Nucleic Acid Atoms Solvent Atoms 303 Heterogen Atoms 132
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing