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Structure of the tirandamycine-bound FAD-dependent tirandamycin oxidase TamL in C2 space group
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Y08 PDB ENTRY 2Y08
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 296 9% PEG 4000, 0.2M MGSO4, 23 DEGREES C., pH 7.5
Crystal Properties Matthews coefficient Solvent content 2.59 52.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 162.046 α = 90 b = 105.786 β = 110.67 c = 70.971 γ = 90
Symmetry Space Group C 1 2 1
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 2010-12-04 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 1.67 86.76 92.9 0.11 6.2 3.8 120184 1.5
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 1.67 1.76 64.2 0.51 1.4 2.5
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 2Y08 1.67 86.76 114137 6026 92.8 0.16358 0.1606 0.1595 0.22039 0.219 RANDOM 18.15
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] 1.12 0.86 1.59 -2.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.97 r_dihedral_angle_4_deg 19.061 r_dihedral_angle_3_deg 14.768 r_scangle_it 6.782 r_dihedral_angle_1_deg 6.369 r_scbond_it 4.881 r_mcangle_it 3.076 r_rigid_bond_restr 2.606 r_mcbond_it 2.101 r_angle_refined_deg 2.096
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.97 r_dihedral_angle_4_deg 19.061 r_dihedral_angle_3_deg 14.768 r_scangle_it 6.782 r_dihedral_angle_1_deg 6.369 r_scbond_it 4.881 r_mcangle_it 3.076 r_rigid_bond_restr 2.606 r_mcbond_it 2.101 r_angle_refined_deg 2.096 r_chiral_restr 0.153 r_bond_refined_d 0.026 r_gen_planes_refined 0.013 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 7599 Nucleic Acid Atoms Solvent Atoms 888 Heterogen Atoms 201
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing