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Crystal structure of L-lysine 6-monooxygenase from Pseudomonas syringae
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 297 0.2 M NaI, 20% PEG3350, 75 uM FAD, cryo 15% glycrol
Crystal Properties Matthews coefficient Solvent content 2.33 47.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.218 α = 90 b = 85.495 β = 90 c = 139.016 γ = 90
Symmetry Space Group I 2 2 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 MIRRORS 2013-07-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97915 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 2.28 30 100 0.095 23.65 8 21336 -3
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 2.28 2.32 100 0.977 2.31 8.1
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 SAD THROUGHOUT 2.28 29.1 20169 1095 99.42 0.18634 0.18394 0.1872 0.23263 0.238 RANDOM 54.148
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] 0.6 -2.1 1.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.144 r_dihedral_angle_4_deg 19.565 r_dihedral_angle_3_deg 14.581 r_long_range_B_other 6.206 r_long_range_B_refined 6.203 r_dihedral_angle_1_deg 5.569 r_scangle_other 4.245 r_mcangle_it 3.662 r_mcangle_other 3.662 r_scbond_other 2.581
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.144 r_dihedral_angle_4_deg 19.565 r_dihedral_angle_3_deg 14.581 r_long_range_B_other 6.206 r_long_range_B_refined 6.203 r_dihedral_angle_1_deg 5.569 r_scangle_other 4.245 r_mcangle_it 3.662 r_mcangle_other 3.662 r_scbond_other 2.581 r_scbond_it 2.58 r_mcbond_it 2.268 r_mcbond_other 2.263 r_angle_refined_deg 1.401 r_angle_other_deg 0.764 r_chiral_restr 0.073 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.001 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 3302 Nucleic Acid Atoms Solvent Atoms 82 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing