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Crystal structure of a designed homodimeric variant T-A(L)A(L) of the tetracycline repressor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A6I PDB ENTRY 1A6I
Crystallization Crystal Properties Matthews coefficient Solvent content 2.38 48.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.656 α = 90 b = 69.656 β = 90 c = 184.328 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 RAYONIX M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 BESSY 14.1
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 2.25 40 99.3 0.06 28.2 19.4 11142 58
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 2.25 2.39 96.2 0.69 4.2 14.1
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 1A6I 2.25 34.84 10254 890 100 0.22032 0.21686 0.2228 0.25886 0.2579 RANDOM 48.629
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] 1.93 1.93 -3.86
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.638 r_dihedral_angle_3_deg 20.376 r_dihedral_angle_4_deg 18.138 r_dihedral_angle_1_deg 7.468 r_scangle_it 1.994 r_angle_refined_deg 1.445 r_scbond_it 1.433 r_angle_other_deg 0.964 r_mcangle_it 0.95 r_mcbond_it 0.784
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.638 r_dihedral_angle_3_deg 20.376 r_dihedral_angle_4_deg 18.138 r_dihedral_angle_1_deg 7.468 r_scangle_it 1.994 r_angle_refined_deg 1.445 r_scbond_it 1.433 r_angle_other_deg 0.964 r_mcangle_it 0.95 r_mcbond_it 0.784 r_symmetry_hbond_refined 0.288 r_symmetry_vdw_other 0.248 r_nbd_refined 0.225 r_symmetry_vdw_refined 0.218 r_xyhbond_nbd_other 0.194 r_xyhbond_nbd_refined 0.193 r_nbd_other 0.19 r_nbtor_refined 0.174 r_mcbond_other 0.139 r_nbtor_other 0.096 r_chiral_restr 0.085 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other 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 1550 Nucleic Acid Atoms Solvent Atoms 55 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling