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Crystal structure of the Thermus thermophilus transcription-repair coupling factor RNA polymerase interacting domain with the Thermus aquaticus RNA polymerase beta1 domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other Thermus aquaticus RNA polymerase beta-subunit beta1 domain
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 295 0.1 M Tris-HCl, 1.6 M di-potassium ammonium phosphate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.99 58.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.585 α = 90 b = 106.585 β = 90 c = 122.301 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 173 CCD ADSC QUANTUM 315 2008-07-10 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) 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 2.9 30 91.3 0.088 14.1 2.2 27972 25538 52
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) 2.9 3 92.4 0.501 1.8 2.1
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 (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 Thermus aquaticus RNA polymerase beta-subunit beta1 domain 2.91 29.56 25538 1170 88.81 0.22792 0.22691 0.2263 0.24983 0.2261 RANDOM 52.019
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] -14.19 -14.19 28.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.944 r_dihedral_angle_3_deg 20.464 r_dihedral_angle_4_deg 18.885 r_dihedral_angle_1_deg 9.813 r_angle_refined_deg 1.236 r_angle_other_deg 0.906 r_scangle_it 0.727 r_mcangle_it 0.485 r_scbond_it 0.429 r_mcbond_it 0.267
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.944 r_dihedral_angle_3_deg 20.464 r_dihedral_angle_4_deg 18.885 r_dihedral_angle_1_deg 9.813 r_angle_refined_deg 1.236 r_angle_other_deg 0.906 r_scangle_it 0.727 r_mcangle_it 0.485 r_scbond_it 0.429 r_mcbond_it 0.267 r_chiral_restr 0.096 r_mcbond_other 0.042 r_gen_planes_refined 0.009 r_bond_refined_d 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6858 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement CNS refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing