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Structure of the substrate-free FAD-dependent tirandamycin oxidase TamL
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WDX PDB ENTRY 2WDX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 296 15% PEG, 0.2 M MGCL2 AND 0.1 M TRIS-HCL, PH 7.5, TEMPERATURE 23 DEGREES C.
Crystal Properties Matthews coefficient Solvent content 2.57 52.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.378 α = 90 b = 129.558 β = 90 c = 134.585 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD ADSC QUANTUM 315r MIRRORS 2010-08-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 ALS 8.3.1
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 1.7 134.58 92.7 0.06 11.2 4 115270 1.5 19.6
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 1.7 1.79 64.3 0.37 1.4 1.9
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 2WDX 1.7 134.59 109497 5768 92.7 0.14404 0.14088 0.1385 0.205 0.203 RANDOM 24.191
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] 0.56 0.94 -1.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.82 r_dihedral_angle_4_deg 19.95 r_dihedral_angle_3_deg 13.652 r_scangle_it 6.868 r_dihedral_angle_1_deg 6.538 r_scbond_it 4.781 r_mcangle_it 3.042 r_rigid_bond_restr 2.564 r_mcbond_it 1.997 r_angle_refined_deg 1.882
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.82 r_dihedral_angle_4_deg 19.95 r_dihedral_angle_3_deg 13.652 r_scangle_it 6.868 r_dihedral_angle_1_deg 6.538 r_scbond_it 4.781 r_mcangle_it 3.042 r_rigid_bond_restr 2.564 r_mcbond_it 1.997 r_angle_refined_deg 1.882 r_chiral_restr 0.142 r_bond_refined_d 0.024 r_gen_planes_refined 0.011 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_other r_long_range_B_refined r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7635 Nucleic Acid Atoms Solvent Atoms 1133 Heterogen Atoms 158
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing