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Dihydrodipicolinate reductase from Paenisporosarcina sp. TG-14
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 30%(v/v) PEG 400, 100mM Tris-HCl (pH 8.5), and 200mM MgCl2
Crystal Properties Matthews coefficient Solvent content 2.85 56.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.229 α = 90 b = 106.229 β = 90 c = 101.999 γ = 120
Symmetry Space Group P 64 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 200 CCD ADSC QUANTUM 315r 2017-05-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 5C (4A) 0.9795 PAL/PLS 5C (4A)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.8 50 97.2 31.8 11.3 31125
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.847
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 MOLECULAR REPLACEMENT THROUGHOUT 1.8 47.11 29463 1596 97 0.16861 0.16652 0.1815 0.20677 0.2179 RANDOM 23.072
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] 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.043 r_dihedral_angle_4_deg 17.302 r_dihedral_angle_3_deg 12.211 r_long_range_B_refined 7.695 r_long_range_B_other 7.288 r_scangle_other 6.148 r_dihedral_angle_1_deg 5.934 r_scbond_it 4.134 r_scbond_other 4.132 r_mcangle_it 2.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.043 r_dihedral_angle_4_deg 17.302 r_dihedral_angle_3_deg 12.211 r_long_range_B_refined 7.695 r_long_range_B_other 7.288 r_scangle_other 6.148 r_dihedral_angle_1_deg 5.934 r_scbond_it 4.134 r_scbond_other 4.132 r_mcangle_it 2.94 r_mcangle_other 2.94 r_mcbond_it 2.239 r_mcbond_other 2.237 r_angle_refined_deg 2.132 r_angle_other_deg 1.137 r_chiral_restr 0.142 r_bond_refined_d 0.022 r_gen_planes_refined 0.011 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 2043 Nucleic Acid Atoms Solvent Atoms 293 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling