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TetR(D) soaked with Tigecycline I4(1)22
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2XPV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291 Native crystal soaked in 1M (NH4)2SO4, 0.2M NaCl, 0.05M Tris/HCl, pH 7.0, 0.0142 mM Tigecycline, 2mM MgCl2, 22days
Crystal Properties Matthews coefficient Solvent content 2.27 45.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.459 α = 90 b = 68.459 β = 90 c = 180.44 γ = 90
Symmetry Space Group I 41 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 RIGAKU SATURN 70 mirror 2009-10-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.5418
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 2.3 31 96 0.081 11 5.83 9565 59
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 2.3 2.38 88.6 0.498 1.8 3.56
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2xpv 2.3 30.2 9560 704 95.849 0.237 0.2333 0.2792 0.2567 66.175
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] 1.301 1.301 -2.601
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.646 r_dihedral_angle_3_deg 19.517 r_dihedral_angle_4_deg 15.741 r_lrange_it 9.047 r_scangle_it 6.959 r_dihedral_angle_1_deg 6.787 r_mcangle_it 6.099 r_scbond_it 5.008 r_mcbond_it 4.285 r_angle_refined_deg 1.765
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.646 r_dihedral_angle_3_deg 19.517 r_dihedral_angle_4_deg 15.741 r_lrange_it 9.047 r_scangle_it 6.959 r_dihedral_angle_1_deg 6.787 r_mcangle_it 6.099 r_scbond_it 5.008 r_mcbond_it 4.285 r_angle_refined_deg 1.765 r_nbtor_refined 0.319 r_nbd_refined 0.253 r_symmetry_nbd_refined 0.24 r_symmetry_xyhbond_nbd_refined 0.174 r_xyhbond_nbd_refined 0.136 r_chiral_restr 0.129 r_metal_ion_refined 0.119 r_bond_refined_d 0.008 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1555 Nucleic Acid Atoms Solvent Atoms 25 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement CrystalClear data reduction CrystalClear data scaling PHASER phasing