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Backtracked RNA polymerase II complex with 24mer RNA
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 3.69 66.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 170.778 α = 90 b = 222.113 β = 102.06 c = 194.854 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 2007-12-06 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 3.9 50 93.3 8.5 3.4 56095
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 3.9 4 82.5 2.1 3
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 MOLECULA REPLACEMENT THROUGHOUT PDB entry 3GTG 3.9 50 56095 3002 91.57 0.2676 0.26597 0.2686 0.29885 0.298 RANDOM 135.967
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] 5.04 -12.92 -9.1 -1.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.076 r_dihedral_angle_3_deg 23.806 r_dihedral_angle_4_deg 19.915 r_dihedral_angle_1_deg 7.86 r_scangle_it 1.82 r_angle_refined_deg 1.808 r_scbond_it 1.196 r_mcangle_it 1.07 r_mcbond_it 0.714 r_symmetry_vdw_refined 0.338
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.076 r_dihedral_angle_3_deg 23.806 r_dihedral_angle_4_deg 19.915 r_dihedral_angle_1_deg 7.86 r_scangle_it 1.82 r_angle_refined_deg 1.808 r_scbond_it 1.196 r_mcangle_it 1.07 r_mcbond_it 0.714 r_symmetry_vdw_refined 0.338 r_nbtor_refined 0.313 r_nbd_refined 0.279 r_xyhbond_nbd_refined 0.199 r_symmetry_hbond_refined 0.172 r_chiral_restr 0.124 r_bond_refined_d 0.027 r_gen_planes_refined 0.006 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 1130 Solvent Atoms Heterogen Atoms 9
Software Software Software Name Purpose MAR345 data collection REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling