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The crystal structure of a S-selective transaminase from Arthrobacter sp.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3GJU PDB ENTRY 3GJU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5 15% PEG3350 0.2 M NA-MALONATE 100 MM MMT BUFFER (DL-MALIC ACID, MES AND TRIS BASE) PH 5.0) 10 MM PLP
Crystal Properties Matthews coefficient Solvent content 2.09 41.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.398 α = 90 b = 142.662 β = 105.33 c = 99.681 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 210 2011-06-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 1.9 48.1 99.8 0.09 14.1 4.2 137172 -3
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 1.9 2 92.4 0.64 2.2 4.2
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3GJU 1.89 46.84 130253 6859 99.74 0.15882 0.15663 0.20048 0.1792 RANDOM 23.645
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] -0.85 -1.34 1.16 0.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.105 r_dihedral_angle_4_deg 18.106 r_dihedral_angle_3_deg 14.749 r_dihedral_angle_1_deg 6.613 r_mcangle_it 2.069 r_scbond_it 1.91 r_angle_refined_deg 1.403 r_mcbond_it 1.311 r_chiral_restr 0.094 r_bond_refined_d 0.011
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.105 r_dihedral_angle_4_deg 18.106 r_dihedral_angle_3_deg 14.749 r_dihedral_angle_1_deg 6.613 r_mcangle_it 2.069 r_scbond_it 1.91 r_angle_refined_deg 1.403 r_mcbond_it 1.311 r_chiral_restr 0.094 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14511 Nucleic Acid Atoms Solvent Atoms 1165 Heterogen Atoms 64
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing