☰ Navigation Tabs
How an in vitro selected peptide mimics the antibiotic tetracycline to induce TET repressor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2NS8 2NS8 (Chain A+B)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 292 1.4M ammonium sulfate, 0.1M sodium chloride, 0.1M HEPES, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.71 54.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 107.91 α = 90 b = 107.91 β = 90 c = 303.94 γ = 120
Symmetry Space Group P 61 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 MAR CCD 165 mm mirrors 2004-12-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.946452 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 2.4 37.04 98.4 0.061 28.43 41266 -3 59.819
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 2.4 2.45 98 0.472 4.9 2396
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 2NS8 (Chain A+B) 2.4 37.04 41265 3302 100 0.234 0.23 0.2368 0.277 0.2791 RANDOM 61.794
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] 3.34 1.67 3.34 -5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.995 r_dihedral_angle_3_deg 17.937 r_dihedral_angle_4_deg 15.449 r_dihedral_angle_1_deg 5.614 r_scangle_it 1.615 r_angle_refined_deg 1.202 r_scbond_it 1.079 r_angle_other_deg 0.805 r_mcangle_it 0.748 r_mcbond_it 0.641
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.995 r_dihedral_angle_3_deg 17.937 r_dihedral_angle_4_deg 15.449 r_dihedral_angle_1_deg 5.614 r_scangle_it 1.615 r_angle_refined_deg 1.202 r_scbond_it 1.079 r_angle_other_deg 0.805 r_mcangle_it 0.748 r_mcbond_it 0.641 r_symmetry_vdw_other 0.229 r_nbd_refined 0.206 r_symmetry_vdw_refined 0.201 r_nbtor_refined 0.172 r_nbd_other 0.158 r_xyhbond_nbd_refined 0.15 r_symmetry_hbond_refined 0.13 r_nbtor_other 0.086 r_mcbond_other 0.082 r_chiral_restr 0.065 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6027 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection XDS data reduction AMoRE phasing