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E. coli mutant sigma-S transcription initiation complex with a 7-nt RNA ("Fresh" mutant crystal soaked with GTP, UTP, and 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 2.75 55.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 133.46 α = 90 b = 154.504 β = 90 c = 235.697 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 2017-10-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.97910 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 4.4 49.4 99.4 0.998 6.92 6 31470
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 4.4 4.66 97.2 0.178 0.44 5.9
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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 5IPL 4.4 49.378 31350 1496 99.04 0.358 0.3572 0.3468 0.3796 0.3681 0 270.499
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] 20.221 -6.7 -13.521
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.583 r_dihedral_angle_3_deg 19.673 r_dihedral_angle_4_deg 17.559 r_lrange_it 12.709 r_lrange_other 12.709 r_dihedral_angle_1_deg 6.672 r_mcangle_it 5.766 r_mcangle_other 5.765 r_scangle_it 4.898 r_scangle_other 4.897
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.583 r_dihedral_angle_3_deg 19.673 r_dihedral_angle_4_deg 17.559 r_lrange_it 12.709 r_lrange_other 12.709 r_dihedral_angle_1_deg 6.672 r_mcangle_it 5.766 r_mcangle_other 5.765 r_scangle_it 4.898 r_scangle_other 4.897 r_mcbond_it 3.274 r_mcbond_other 3.274 r_scbond_it 2.67 r_scbond_other 2.67 r_angle_refined_deg 1.602 r_angle_other_deg 1.331 r_symmetry_xyhbond_nbd_refined 0.458 r_nbd_other 0.349 r_symmetry_nbd_refined 0.312 r_xyhbond_nbd_refined 0.278 r_symmetry_nbd_other 0.246 r_nbd_refined 0.231 r_xyhbond_nbd_other 0.214 r_symmetry_xyhbond_nbd_other 0.205 r_nbtor_refined 0.159 r_ncsr_local_group_1 0.15 r_chiral_restr 0.078 r_gen_planes_refined 0.027 r_gen_planes_other 0.024 r_bond_refined_d 0.009 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 27511 Nucleic Acid Atoms 1407 Solvent Atoms Heterogen Atoms 13
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing