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Tet repressor class H in complex with 5a,6- anhydrotetracycline-Mg
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 7.5 3.31 MG/ML TETR(H), 100 UL 2 MM ANTC,100 UL TETR(H),0.5 UL 3 M MGCL2, 20 % PEG1500, 0.1 M NAHEPES PH 7.5, 2 UL RESERVOIR LSG PLUS 2 UL PROTEIN
Crystal Properties Matthews coefficient Solvent content 2.3 46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.361 α = 90 b = 108.744 β = 90 c = 68.976 γ = 90
Symmetry Space Group C 2 2 21
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 MIRRORS 2005-03-24 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 2.5 50 98 0.09 9.6 4.2 7669 53.2
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 2.5 2.54 69 0.51 2.8 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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2TCT 2.49 20 6898 741 99.7 0.209 0.201 0.2014 0.285 0.2795 RANDOM 34.87
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] 3.33 -2.81 -0.52
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.711 r_dihedral_angle_3_deg 21.093 r_dihedral_angle_4_deg 19.048 r_dihedral_angle_1_deg 6.919 r_scangle_it 2.33 r_angle_refined_deg 1.576 r_scbond_it 1.509 r_mcangle_it 1.044 r_angle_other_deg 1.003 r_mcbond_it 0.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.711 r_dihedral_angle_3_deg 21.093 r_dihedral_angle_4_deg 19.048 r_dihedral_angle_1_deg 6.919 r_scangle_it 2.33 r_angle_refined_deg 1.576 r_scbond_it 1.509 r_mcangle_it 1.044 r_angle_other_deg 1.003 r_mcbond_it 0.69 r_symmetry_vdw_refined 0.365 r_nbd_refined 0.247 r_symmetry_vdw_other 0.213 r_nbtor_refined 0.195 r_nbd_other 0.187 r_xyhbond_nbd_refined 0.126 r_symmetry_hbond_refined 0.121 r_nbtor_other 0.095 r_chiral_restr 0.091 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1547 Nucleic Acid Atoms Solvent Atoms 18 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing