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Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic 5a-(3-formylphenylsulfanyl)-dihydrobicyclomycin (FPDB)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 293 PEG 8000, Na Cacodylate, NaCl, Glycerol, FOS-Choline-12, pH 6.5, VAPOR DIFFUSION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.16 60.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.477 α = 90 b = 206.935 β = 96.95 c = 148.607 γ = 90
Symmetry Space Group C 1 2 1
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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.1000 ALS 8.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.9 20 63215 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.9 2.974 81
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 3.05 20 54446 2885 86.53 0.28784 0.27589 0.2679 0.29493 0.2631 RANDOM 33.43
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] -1.78 0.55 1.86 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.741 r_dihedral_angle_3_deg 17.536 r_dihedral_angle_4_deg 12.791 r_dihedral_angle_1_deg 5.043 r_angle_refined_deg 1.049 r_nbtor_refined 0.298 r_symmetry_vdw_refined 0.207 r_nbd_refined 0.206 r_xyhbond_nbd_refined 0.174 r_symmetry_hbond_refined 0.118
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.741 r_dihedral_angle_3_deg 17.536 r_dihedral_angle_4_deg 12.791 r_dihedral_angle_1_deg 5.043 r_angle_refined_deg 1.049 r_nbtor_refined 0.298 r_symmetry_vdw_refined 0.207 r_nbd_refined 0.206 r_xyhbond_nbd_refined 0.174 r_symmetry_hbond_refined 0.118 r_chiral_restr 0.061 r_scangle_it 0.008 r_bond_refined_d 0.006 r_scbond_it 0.005 r_gen_planes_refined 0.004 r_mcbond_it 0.002 r_mcangle_it 0.002 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 19271 Nucleic Acid Atoms 240 Solvent Atoms 20 Heterogen Atoms 342
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling AMoRE phasing REFMAC refinement CCP4 data scaling