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E. coli sigma-S transcription initiation complex with a mismatching CTP ("Old" crystal soaked with CTP for 30 minutes)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5IPL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 295 PEG3350, sodium chloride, HEPES
Crystal Properties Matthews coefficient Solvent content 2.65 53.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 132.576 α = 90 b = 152.729 β = 90 c = 229.85 γ = 90
Symmetry Space Group P 21 21 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 PIXEL DECTRIS PILATUS 6M-F 2017-07-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.97918 APS 24-ID-E
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 4.15 49 99.3 0.999 10.24 13.4 35751
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 4.15 4.4 95.9 0.139 0.5 13.1
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 5IPL 4.15 48.96 35322 1698 98.024 0.305 0.3016 0.2967 0.37 0.36 277.767
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] 0.012 0.56 -0.572
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 33.579 r_lrange_other 33.579 r_dihedral_angle_2_deg 19.617 r_mcangle_it 16.665 r_mcangle_other 16.665 r_dihedral_angle_3_deg 15.875 r_dihedral_angle_4_deg 12.692 r_scangle_it 12.55 r_scangle_other 12.549 r_mcbond_it 9.509
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 33.579 r_lrange_other 33.579 r_dihedral_angle_2_deg 19.617 r_mcangle_it 16.665 r_mcangle_other 16.665 r_dihedral_angle_3_deg 15.875 r_dihedral_angle_4_deg 12.692 r_scangle_it 12.55 r_scangle_other 12.549 r_mcbond_it 9.509 r_mcbond_other 9.507 r_scbond_it 6.746 r_scbond_other 6.735 r_dihedral_angle_1_deg 5.426 r_angle_refined_deg 1.15 r_angle_other_deg 0.453 r_nbd_other 0.371 r_symmetry_xyhbond_nbd_refined 0.344 r_symmetry_nbd_refined 0.297 r_xyhbond_nbd_refined 0.236 r_nbd_refined 0.228 r_symmetry_nbd_other 0.219 r_nbtor_refined 0.161 r_symmetry_xyhbond_nbd_other 0.124 r_ncsr_local_group_1 0.118 r_metal_ion_refined 0.078 r_gen_planes_refined 0.052 r_gen_planes_other 0.047 r_chiral_restr 0.043 r_xyhbond_nbd_other 0.041 r_bond_refined_d 0.005 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 27572 Nucleic Acid Atoms 1356 Solvent Atoms Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing