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Structure of RusA D70N in complex with DNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Q8R PDB ENTRY 1Q8R
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.1 298 20% PEG 3350, 0.2M Sodium Fluoride, pH 7.1, VAPOR DIFFUSION, HANGING DROP, temperature 298K, pH 7.10
Crystal Properties Matthews coefficient Solvent content 2.46 49.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.616 α = 90 b = 59.483 β = 101.59 c = 90.721 γ = 90
Symmetry Space Group P 1 21 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 IMAGE PLATE MAR scanner 345 mm plate 2004-08-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200
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 3.1 44 99.9 12485
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 3.1 3.27 100
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1Q8R 3.1 44.46 12485 11874 601 99.9 0.249 0.247 0.2358 0.289 0.2703 RANDOM 89.07
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] 2.66 -0.94 5.26 -8.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.931 r_dihedral_angle_3_deg 22.792 r_dihedral_angle_4_deg 22.22 r_dihedral_angle_1_deg 10.095 r_angle_refined_deg 0.922 r_symmetry_hbond_refined 0.397 r_nbtor_refined 0.335 r_symmetry_vdw_refined 0.312 r_nbd_refined 0.304 r_xyhbond_nbd_refined 0.211
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.931 r_dihedral_angle_3_deg 22.792 r_dihedral_angle_4_deg 22.22 r_dihedral_angle_1_deg 10.095 r_angle_refined_deg 0.922 r_symmetry_hbond_refined 0.397 r_nbtor_refined 0.335 r_symmetry_vdw_refined 0.312 r_nbd_refined 0.304 r_xyhbond_nbd_refined 0.211 r_chiral_restr 0.045 r_bond_refined_d 0.004 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_it r_mcbond_other r_mcangle_it r_scbond_it r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3474 Nucleic Acid Atoms 868 Solvent Atoms 2 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction CCP4 data scaling MOLREP phasing