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RNA polymerase II elongation complex in 150 mm MG+2 with UTP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SFO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 200MM NH4OAC, 150MM MG(OAC)2, 50MM HEPES, PH 7.0, 5% PEG6000, pH 7.00, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.88 68.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 170.61 α = 90 b = 222.729 β = 101.87 c = 196.16 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 ADSC QUANTUM 315 2005-03-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 SSRL BL11-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 3.4 20 93 0.09 10.4 2.6 91438 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.4 3.5 76.6 0.361 1.3 1.4
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 1SFO 3.4 19.98 85341 2609 89.95 0.28517 0.28339 0.2707 0.34392 0.3182 RANDOM 153.436
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] -0.24 -1.52 0.79 -1.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.293 r_dihedral_angle_3_deg 23.196 r_dihedral_angle_4_deg 19.52 r_dihedral_angle_1_deg 9.076 r_angle_refined_deg 1.474 r_scangle_it 1.366 r_mcangle_it 0.85 r_scbond_it 0.807 r_mcbond_it 0.461 r_metal_ion_refined 0.399
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.293 r_dihedral_angle_3_deg 23.196 r_dihedral_angle_4_deg 19.52 r_dihedral_angle_1_deg 9.076 r_angle_refined_deg 1.474 r_scangle_it 1.366 r_mcangle_it 0.85 r_scbond_it 0.807 r_mcbond_it 0.461 r_metal_ion_refined 0.399 r_nbtor_refined 0.317 r_nbd_refined 0.277 r_symmetry_vdw_refined 0.227 r_xyhbond_nbd_refined 0.207 r_symmetry_hbond_refined 0.164 r_chiral_restr 0.091 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 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_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 28396 Nucleic Acid Atoms 1066 Solvent Atoms Heterogen Atoms 39
Software Software Software Name Purpose REFMAC refinement