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X-ray crystal structure of the N4 mini-VRNAP and P2_7a promoter transcription initiation complex with pppGpG and pyrophosphate: product complex
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 HANGING DROP 8 294 0.1 M TRIS-HCL, 0.21 M DIBASIC AMMONIUM CITRATE, 0.09 M AMMONIUM DIHYDROGEN MONOPHOSPHATE, 25% (DROP) 21.5-22% (RESERVOIR) PEG 3350, pH 8.0, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.41 48.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.459 α = 90 b = 111.79 β = 90 c = 277.009 γ = 90
Symmetry Space Group P 21 21 21
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 2006-11-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 NSLS X25
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 1.8 50 99.7 0.072 10.5 5.9 233493 233493 1 1
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) 1.8 1.86 98.7 0.728 4.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1.81 41.49 233362 233362 11698 98.9 0.202 0.202 0.201 0.1992 0.235 0.2337 RANDOM 32.61
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] 1.03 -0.14 -0.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.062 r_dihedral_angle_4_deg 16.76 r_dihedral_angle_3_deg 14.905 r_dihedral_angle_1_deg 5.187 r_scangle_it 2.152 r_scbond_it 1.401 r_angle_refined_deg 1.096 r_mcangle_it 0.94 r_mcbond_it 0.726 r_nbtor_refined 0.296
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.062 r_dihedral_angle_4_deg 16.76 r_dihedral_angle_3_deg 14.905 r_dihedral_angle_1_deg 5.187 r_scangle_it 2.152 r_scbond_it 1.401 r_angle_refined_deg 1.096 r_mcangle_it 0.94 r_mcbond_it 0.726 r_nbtor_refined 0.296 r_symmetry_vdw_refined 0.194 r_nbd_refined 0.19 r_xyhbond_nbd_refined 0.112 r_symmetry_hbond_refined 0.11 r_chiral_restr 0.075 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 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 16897 Nucleic Acid Atoms 881 Solvent Atoms 2399 Heterogen Atoms 83
Software Software Software Name Purpose REFMAC refinement CNS refinement CBASS data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing