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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 7 293 13-19% PEG 3350, 0.3M KCl, 100mM MOPSO pH7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K, pH 7.00
Crystal Properties Matthews coefficient Solvent content 2.29 46.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.41 α = 90 b = 97.83 β = 104.35 c = 139.46 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 2006-03-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL1-5 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 2.25 30 90 0.56 12.5 2.49 110711
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) 2.25 2.31 82.6 0.414 2.53 2.41
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 RIGID BODY THROUGHOUT PDB ENTRY 1LK9 2.25 29.66 105162 105162 5549 95.9 0.225 0.224 0.2216 0.253 0.2394 RANDOM 46.99
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] -4.74 -0.78 6.33 -1.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.614 r_dihedral_angle_4_deg 19.187 r_dihedral_angle_3_deg 18.547 r_sphericity_free 8.671 r_dihedral_angle_1_deg 7.851 r_scangle_it 3.789 r_scbond_it 2.62 r_mcangle_it 2.378 r_sphericity_bonded 2.112 r_rigid_bond_restr 1.856
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.614 r_dihedral_angle_4_deg 19.187 r_dihedral_angle_3_deg 18.547 r_sphericity_free 8.671 r_dihedral_angle_1_deg 7.851 r_scangle_it 3.789 r_scbond_it 2.62 r_mcangle_it 2.378 r_sphericity_bonded 2.112 r_rigid_bond_restr 1.856 r_angle_refined_deg 1.734 r_mcbond_it 1.468 r_nbtor_refined 0.316 r_symmetry_vdw_refined 0.28 r_symmetry_hbond_refined 0.276 r_nbd_refined 0.252 r_chiral_restr 0.216 r_xyhbond_nbd_refined 0.201 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 17464 Nucleic Acid Atoms Solvent Atoms 592 Heterogen Atoms 81
Software Software Software Name Purpose REFMAC refinement Blu-Ice data collection XDS data reduction XSCALE data scaling