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TetR(D) E147A mutant in complex with anhydrotetracycline and magnesium
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4D7M PDB ENTRY 4D7M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 295 15% PEG 4000, 100 MM MES PH 6.5, 600 MM NACL, 1 MM 5A,6-ANHYDROTETRACYCLINE, 7.5 MM MGCL2 AT 295 K
Crystal Properties Matthews coefficient Solvent content 2.25 45.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.467 α = 90 b = 68.467 β = 90 c = 178.787 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 MARRESEARCH SX-165 MIRRORS M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 EMBL/DESY, HAMBURG X13
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 1.85 64.6 99.6 0.08 29.6 8.4 18638 -3 34.4
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 1.85 1.88 99.6 0.67 2.1 3.6
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 4D7M 1.85 64.02 17674 953 99.69 0.21293 0.21055 0.25993 0.2877 RANDOM 43.346
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] 0.68 0.68 -1.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.729 r_dihedral_angle_3_deg 12.575 r_dihedral_angle_4_deg 11.053 r_dihedral_angle_1_deg 5.03 r_mcangle_it 2.149 r_scbond_it 1.613 r_mcbond_it 1.374 r_mcbond_other 1.374 r_angle_refined_deg 1.183 r_angle_other_deg 0.729
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.729 r_dihedral_angle_3_deg 12.575 r_dihedral_angle_4_deg 11.053 r_dihedral_angle_1_deg 5.03 r_mcangle_it 2.149 r_scbond_it 1.613 r_mcbond_it 1.374 r_mcbond_other 1.374 r_angle_refined_deg 1.183 r_angle_other_deg 0.729 r_chiral_restr 0.067 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_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 1570 Nucleic Acid Atoms Solvent Atoms 107 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing