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E. coli sigma-S transcription initiation complex with a mismatching UTP ("Fresh" crystal soaked with UTP for 2 hours)
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 2.73 54.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 132.942 α = 90 b = 154.992 β = 90 c = 233.253 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 2017-06-09 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 3.95 38.9 99.1 0.999 9.8 5 42501
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 3.95 4.19 95.9 0.146 4.5
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 3.955 38.9 42180 2024 98.374 0.306 0.3028 0.2964 0.3746 0.3601 281.672
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] -0.951 1.606 -0.655
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 32.149 r_lrange_other 32.149 r_dihedral_angle_2_deg 20.215 r_mcangle_it 18.01 r_mcangle_other 18.01 r_dihedral_angle_3_deg 16.059 r_scangle_it 14.119 r_scangle_other 14.119 r_dihedral_angle_4_deg 12.926 r_mcbond_it 10.625
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 32.149 r_lrange_other 32.149 r_dihedral_angle_2_deg 20.215 r_mcangle_it 18.01 r_mcangle_other 18.01 r_dihedral_angle_3_deg 16.059 r_scangle_it 14.119 r_scangle_other 14.119 r_dihedral_angle_4_deg 12.926 r_mcbond_it 10.625 r_mcbond_other 10.624 r_scbond_it 7.896 r_scbond_other 7.896 r_dihedral_angle_1_deg 5.458 r_angle_refined_deg 1.181 r_angle_other_deg 0.509 r_symmetry_nbd_refined 0.388 r_nbd_other 0.378 r_symmetry_xyhbond_nbd_refined 0.272 r_xyhbond_nbd_refined 0.233 r_symmetry_nbd_other 0.213 r_nbd_refined 0.21 r_nbtor_refined 0.162 r_symmetry_xyhbond_nbd_other 0.128 r_ncsr_local_group_1 0.113 r_gen_planes_refined 0.05 r_gen_planes_other 0.046 r_chiral_restr 0.044 r_metal_ion_refined 0.026 r_bond_refined_d 0.005 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 27482 Nucleic Acid Atoms 1356 Solvent Atoms Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing