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Tet Repressor class D in complex with 7-chlor-2-cyano-iso- tetracycline
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VKE PDB ENTRY 2VKE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 50 MM TRIS/HCL PH 9.5, 750 MM (NH4)2SO4, 70 MM NACL, 1 MM EDTA
Crystal Properties Matthews coefficient Solvent content 2.32 46.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.05 α = 90 b = 69.05 β = 90 c = 180.61 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 2004-04-01 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 2.3 27.43 99.2 0.04 41.3 11.45 10063 2 51.5
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 2.34 99.6 0.26 10.9 7.58
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 2VKE 2.3 27.43 9007 996 99.15 0.21954 0.21411 0.2223 0.26867 0.2615 RANDOM 54.564
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] 1.96 1.96 -3.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.418 r_dihedral_angle_3_deg 15.647 r_dihedral_angle_4_deg 14.953 r_dihedral_angle_1_deg 5.796 r_scangle_it 3.432 r_scbond_it 2.239 r_angle_refined_deg 1.67 r_mcangle_it 1.619 r_angle_other_deg 0.988 r_mcbond_it 0.892
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.418 r_dihedral_angle_3_deg 15.647 r_dihedral_angle_4_deg 14.953 r_dihedral_angle_1_deg 5.796 r_scangle_it 3.432 r_scbond_it 2.239 r_angle_refined_deg 1.67 r_mcangle_it 1.619 r_angle_other_deg 0.988 r_mcbond_it 0.892 r_mcbond_other 0.185 r_chiral_restr 0.09 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 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_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 1513 Nucleic Acid Atoms Solvent Atoms 48 Heterogen Atoms 34
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling PHASER phasing