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Dipicolinate bound 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 HEPES:NaOH (pH 7.5), and 200mM MgCl2
Crystal Properties Matthews coefficient Solvent content 2.8 56.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.855 α = 90 b = 105.855 β = 90 c = 101.472 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 2017-10-19 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 50 100 89.2 43.5 31600
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 46.93
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 46.93 29965 1598 99.89 0.16096 0.15927 0.1732 0.19208 0.2037 RANDOM 20.985
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.69 r_dihedral_angle_4_deg 16.357 r_dihedral_angle_3_deg 12.299 r_long_range_B_refined 7.874 r_long_range_B_other 7.613 r_scangle_other 6.285 r_dihedral_angle_1_deg 6.219 r_scbond_other 4.185 r_scbond_it 4.181 r_mcangle_it 2.835
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.69 r_dihedral_angle_4_deg 16.357 r_dihedral_angle_3_deg 12.299 r_long_range_B_refined 7.874 r_long_range_B_other 7.613 r_scangle_other 6.285 r_dihedral_angle_1_deg 6.219 r_scbond_other 4.185 r_scbond_it 4.181 r_mcangle_it 2.835 r_mcangle_other 2.835 r_angle_refined_deg 2.114 r_mcbond_it 2.106 r_mcbond_other 2.104 r_angle_other_deg 1.163 r_chiral_restr 0.141 r_bond_refined_d 0.023 r_gen_planes_refined 0.012 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 2051 Nucleic Acid Atoms Solvent Atoms 293 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling