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L-tryptophan aminotransferase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LK9 PDB entry 1lk9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 277 13-19% PEG 3350, 0.3M KCl, 100mM MOPSO pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.3 46.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.33 α = 90 b = 98.66 β = 104.5 c = 139.36 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 315 mirrors + double monochromator M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL1-5 0.97944 SSRL BL1-5
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (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 2.4 30 95.3 0.106 11.69 3.81 95855 91359
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.4 2.46 91.3 0.431 3.39 3.87
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 PDB entry 1lk9 2.4 29.66 89133 4682 97.92 0.23844 0.23769 0.2382 0.25272 0.2534 RANDOM 33.207
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] -3.5 -1.02 6.44 -3.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.26 r_dihedral_angle_4_deg 20.406 r_dihedral_angle_3_deg 17.006 r_sphericity_free 3.716 r_dihedral_angle_1_deg 2.953 r_sphericity_bonded 2.861 r_scangle_it 2.854 r_mcangle_it 2.532 r_rigid_bond_restr 2.312 r_scbond_it 1.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.26 r_dihedral_angle_4_deg 20.406 r_dihedral_angle_3_deg 17.006 r_sphericity_free 3.716 r_dihedral_angle_1_deg 2.953 r_sphericity_bonded 2.861 r_scangle_it 2.854 r_mcangle_it 2.532 r_rigid_bond_restr 2.312 r_scbond_it 1.98 r_mcbond_it 1.655 r_angle_refined_deg 1.596 r_symmetry_vdw_refined 0.336 r_nbtor_refined 0.331 r_symmetry_hbond_refined 0.289 r_nbd_refined 0.265 r_xyhbond_nbd_refined 0.197 r_chiral_restr 0.156 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 17558 Nucleic Acid Atoms Solvent Atoms 927 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement Blu-Ice data collection XDS data reduction XSCALE data scaling