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Crystal structure of the G136F mutant of the first R-stereoselective -transaminase identified from Arthrobacter sp. KNK168 (FERM-BP-5228)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.8 293 0.2M magnesium chloride, 0.1M HEPES-HCl, 16% PEG 3350, pH 7.8, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.42 49.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.96 α = 90 b = 134.28 β = 100.34 c = 196.04 γ = 90
Symmetry Space Group P 1 21 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 315r 2013-11-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.0000 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 2.27 50 98.8 193164 190871 -3
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 2.27 2.4 95.9
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 2.27 40 181256 9595 98.81 0.1733 0.17097 0.1782 0.21791 0.2208 RANDOM 43.991
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] 0.06 -0.92 0.33 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.542 r_dihedral_angle_4_deg 19.425 r_dihedral_angle_3_deg 12.675 r_long_range_B_refined 6.399 r_long_range_B_other 6.346 r_dihedral_angle_1_deg 6.029 r_scangle_other 2.536 r_mcangle_it 1.999 r_mcangle_other 1.999 r_scbond_it 1.555
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.542 r_dihedral_angle_4_deg 19.425 r_dihedral_angle_3_deg 12.675 r_long_range_B_refined 6.399 r_long_range_B_other 6.346 r_dihedral_angle_1_deg 6.029 r_scangle_other 2.536 r_mcangle_it 1.999 r_mcangle_other 1.999 r_scbond_it 1.555 r_scbond_other 1.555 r_angle_refined_deg 1.455 r_mcbond_it 1.226 r_mcbond_other 1.226 r_angle_other_deg 0.783 r_chiral_restr 0.081 r_bond_refined_d 0.012 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 30292 Nucleic Acid Atoms Solvent Atoms 1856 Heterogen Atoms 180
Software Software Software Name Purpose XDS data scaling MOLREP phasing REFMAC refinement XDS data reduction XSCALE data scaling