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NADPH/PDA bound Dihydrodipicolinate reductase from Paenisporosarcina sp. TG-14
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.2M Ammonium Sulfate, 0.1M Tris:HCl pH 8.5, and 25%(w/v) PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.29 46.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.942 α = 90 b = 79.942 β = 90 c = 83.835 γ = 90
Symmetry Space Group P 42 21 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 2017-09-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 5C (4A) 0.9796 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 2.1 50.01 99.3 40.9 13.3 16378
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 2.1 2.15
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 2.1 50.01 15536 783 99.23 0.19021 0.18701 0.1957 0.25657 0.258 RANDOM 41.853
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] -3.09 -3.09 6.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.708 r_dihedral_angle_4_deg 14.982 r_dihedral_angle_3_deg 14.211 r_long_range_B_refined 6.923 r_dihedral_angle_1_deg 6.921 r_long_range_B_other 6.831 r_scangle_other 5.576 r_mcangle_other 3.733 r_mcangle_it 3.73 r_scbond_other 3.716
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.708 r_dihedral_angle_4_deg 14.982 r_dihedral_angle_3_deg 14.211 r_long_range_B_refined 6.923 r_dihedral_angle_1_deg 6.921 r_long_range_B_other 6.831 r_scangle_other 5.576 r_mcangle_other 3.733 r_mcangle_it 3.73 r_scbond_other 3.716 r_scbond_it 3.713 r_mcbond_it 2.754 r_mcbond_other 2.749 r_angle_refined_deg 1.807 r_angle_other_deg 1.014 r_chiral_restr 0.095 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 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 125 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling