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Backtracked RNA polymerase II complex with 13mer with G<>U mismatch
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3GTG PDB entry 3GTG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 390mM (NH4)2HPO4/NaH2PO4, pH 6.0, 50mM Dioxane, 10mM DTT, 9-11% PEG 6000, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.71 66.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 170.531 α = 90 b = 222.282 β = 102.19 c = 194.813 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 MARMOSAIC 325 mm CCD 2007-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.98 SSRL BL11-1
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 3.38 50 92.3 10.5 2.5 90557
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 3.38 3.5 89.2 1.5 2.2
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 PDB entry 3GTG 3.38 50 85851 4515 91.06 0.27285 0.27028 0.2771 0.32168 0.3233 RANDOM 96.182
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] 1.57 -11.68 -4.39 -2.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.538 r_dihedral_angle_3_deg 24.019 r_dihedral_angle_4_deg 18.674 r_dihedral_angle_1_deg 7.947 r_scangle_it 1.882 r_angle_refined_deg 1.613 r_mcangle_it 1.168 r_scbond_it 1.071 r_mcbond_it 0.656 r_nbtor_refined 0.319
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.538 r_dihedral_angle_3_deg 24.019 r_dihedral_angle_4_deg 18.674 r_dihedral_angle_1_deg 7.947 r_scangle_it 1.882 r_angle_refined_deg 1.613 r_mcangle_it 1.168 r_scbond_it 1.071 r_mcbond_it 0.656 r_nbtor_refined 0.319 r_symmetry_vdw_refined 0.295 r_symmetry_hbond_refined 0.284 r_nbd_refined 0.273 r_xyhbond_nbd_refined 0.211 r_chiral_restr 0.11 r_bond_refined_d 0.013 r_gen_planes_refined 0.004 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_symmetry_metal_ion_refined r_symmetry_metal_ion_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 28140 Nucleic Acid Atoms 1107 Solvent Atoms Heterogen Atoms 9
Software Software Software Name Purpose MAR345 data collection REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling