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Homoserine dehydrogenase from Thermus thermophilus HB8 complexed with HSE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 10 298 Sodium formate, CAPS pH 10.0
Crystal Properties Matthews coefficient Solvent content 4.22 70.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.625 α = 90 b = 119.625 β = 90 c = 145.02 γ = 120
Symmetry Space Group P 32 2 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 CCD ADSC QUANTUM 210 2012-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.0 Photon Factory BL-5A
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 20 99.8 42 11 80859
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 2.03 100 5.7 10.7
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 20 76592 4042 99.38 0.18634 0.18461 0.1946 0.21913 0.2264 RANDOM 31.182
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] -0.34 -0.17 -0.34 1.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.304 r_dihedral_angle_4_deg 18.648 r_dihedral_angle_3_deg 12.566 r_long_range_B_refined 7.283 r_long_range_B_other 7.281 r_dihedral_angle_1_deg 6.668 r_scangle_other 5.818 r_mcangle_it 4.315 r_mcangle_other 4.315 r_scbond_it 4.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.304 r_dihedral_angle_4_deg 18.648 r_dihedral_angle_3_deg 12.566 r_long_range_B_refined 7.283 r_long_range_B_other 7.281 r_dihedral_angle_1_deg 6.668 r_scangle_other 5.818 r_mcangle_it 4.315 r_mcangle_other 4.315 r_scbond_it 4.11 r_scbond_other 4.108 r_mcbond_it 3.408 r_mcbond_other 3.407 r_angle_refined_deg 2.137 r_angle_other_deg 1.162 r_chiral_restr 0.151 r_bond_refined_d 0.024 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 4773 Nucleic Acid Atoms Solvent Atoms 499 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement