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Crystal Structure Analysis of Tet Repressor (class D) in Complex with 7-Chlortetracycline-Nickel(II)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2TCT PDB ENTRY 2TCT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.2 293 1.58 M Ammonium sulphate, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
Crystal Properties Matthews coefficient Solvent content 2.31 46.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.937 α = 90 b = 68.937 β = 90 c = 180.893 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 277 IMAGE PLATE MARRESEARCH 1997-01-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR571 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.2 64.5 97.6 0.06 16.4 4.5 10706 10706 32.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.258 0.268 3.2 751
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2TCT 2.2 64.55 10706 10706 544 97.62 0.14942 0.14942 0.14638 0.1563 0.2147 0.2214 RANDOM 33.999
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] 0.78 0.78 -1.55
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 6.745 r_dihedral_angle_1_deg 6.039 r_scbond_it 4.094 r_mcangle_it 3.042 r_angle_refined_deg 2.464 r_mcbond_it 1.609 r_angle_other_deg 1.146 r_symmetry_vdw_other 0.312 r_nbd_other 0.252 r_symmetry_hbond_refined 0.245
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 6.745 r_dihedral_angle_1_deg 6.039 r_scbond_it 4.094 r_mcangle_it 3.042 r_angle_refined_deg 2.464 r_mcbond_it 1.609 r_angle_other_deg 1.146 r_symmetry_vdw_other 0.312 r_nbd_other 0.252 r_symmetry_hbond_refined 0.245 r_nbd_refined 0.242 r_symmetry_vdw_refined 0.24 r_xyhbond_nbd_refined 0.195 r_chiral_restr 0.167 r_nbtor_other 0.113 r_bond_refined_d 0.034 r_gen_planes_refined 0.014 r_gen_planes_other 0.01 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1641 Nucleic Acid Atoms Solvent Atoms 102 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement MAR345 data collection SCALEPACK data scaling