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Backtracked RNA polymerase II complex induced by damage
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1R9T PDB entry 1R9T
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 3.61 65.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 168.186 α = 90 b = 221.581 β = 101.81 c = 192.8 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 2005-07-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 1.0000 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 3.8 50 96.1 10.2 2.7 66377
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 3.8 3.9 96.8 2.5 2.6
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 1R9T 3.8 50 61632 3287 95.53 0.27378 0.27056 0.2532 0.3348 0.3048 RANDOM 95.463
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] 6.09 -8.48 -7.55 -2.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.178 r_dihedral_angle_3_deg 22.78 r_dihedral_angle_4_deg 18.601 r_dihedral_angle_1_deg 7.535 r_scangle_it 1.575 r_angle_refined_deg 1.541 r_mcangle_it 1.039 r_scbond_it 0.875 r_mcbond_it 0.566 r_nbtor_refined 0.317
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.178 r_dihedral_angle_3_deg 22.78 r_dihedral_angle_4_deg 18.601 r_dihedral_angle_1_deg 7.535 r_scangle_it 1.575 r_angle_refined_deg 1.541 r_mcangle_it 1.039 r_scbond_it 0.875 r_mcbond_it 0.566 r_nbtor_refined 0.317 r_symmetry_vdw_refined 0.28 r_nbd_refined 0.268 r_symmetry_hbond_refined 0.206 r_xyhbond_nbd_refined 0.2 r_chiral_restr 0.108 r_bond_refined_d 0.011 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 477 Solvent Atoms Heterogen Atoms 8
Software Software Software Name Purpose MAR345 data collection REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling