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Characterization of a Novel Transaminase from Pseudomonas sp. Strain AAC
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4UHM PDB ENTRY 4UHM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 PROTEIN WAS AT 8 MG/ML, DROPS WERE 200 NL PLUS 200 NL WITH THE RESERVOIR SOLUTION MADE UP OF 10% PEG 4000, 0.2 M MGCL2, 0.1 M TRIS PH 7
Crystal Properties Matthews coefficient Solvent content 2.73 54.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.958 α = 90 b = 120.798 β = 90 c = 134.17 γ = 90
Symmetry Space Group I 2 2 2
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 CCD 2013-02-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.24 44.9 99.9 0.08 12.6 7.2 144518
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.24 1.26 98.2 0.68 2.8 7
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 4UHM 1.24 89.77 137317 7188 99.89 0.10631 0.10543 0.1227 0.12314 0.1376 RANDOM 11.226
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] -0.11 0.54 -0.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.124 r_sphericity_free 28.883 r_dihedral_angle_4_deg 21.01 r_dihedral_angle_3_deg 12.631 r_sphericity_bonded 7.032 r_dihedral_angle_1_deg 5.954 r_scbond_it 1.668 r_angle_refined_deg 1.666 r_rigid_bond_restr 1.414 r_angle_other_deg 1.014
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.124 r_sphericity_free 28.883 r_dihedral_angle_4_deg 21.01 r_dihedral_angle_3_deg 12.631 r_sphericity_bonded 7.032 r_dihedral_angle_1_deg 5.954 r_scbond_it 1.668 r_angle_refined_deg 1.666 r_rigid_bond_restr 1.414 r_angle_other_deg 1.014 r_mcangle_it 1 r_mcbond_it 0.735 r_mcbond_other 0.734 r_chiral_restr 0.093 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_gen_planes_other 0.005 r_bond_other_d 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3299 Nucleic Acid Atoms Solvent Atoms 620 Heterogen Atoms 83
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing