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Crystal structure of type II restrcition endonuclease, EcoO109I complexed with cognate DNA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.1 293 PEG 20000, sodium acetate, 6-aminocaproic acid, pH 6.1, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.8 56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.103 α = 90 b = 71.879 β = 90 c = 203.24 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 IMAGE PLATE RIGAKU RAXIS IV M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE 1.54
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 1.9 67.77 93.5 55952 55952
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.9 1.97 89.4
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 MIR THROUGHOUT 1.9 23.64 55952 53090 2841 97.55 0.1733 0.1733 0.17063 0.2106 0.22324 0.2617 RANDOM 17.636
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] 0.04 -0.02 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.562 r_dihedral_angle_4_deg 20.965 r_dihedral_angle_3_deg 14.661 r_dihedral_angle_1_deg 6.055 r_scangle_it 3.625 r_scbond_it 2.495 r_angle_refined_deg 1.794 r_mcangle_it 1.674 r_angle_other_deg 1.004 r_mcbond_it 0.926
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.562 r_dihedral_angle_4_deg 20.965 r_dihedral_angle_3_deg 14.661 r_dihedral_angle_1_deg 6.055 r_scangle_it 3.625 r_scbond_it 2.495 r_angle_refined_deg 1.794 r_mcangle_it 1.674 r_angle_other_deg 1.004 r_mcbond_it 0.926 r_mcbond_other 0.285 r_nbd_refined 0.271 r_xyhbond_nbd_refined 0.198 r_symmetry_vdw_other 0.198 r_nbd_other 0.197 r_nbtor_refined 0.194 r_symmetry_hbond_refined 0.173 r_metal_ion_refined 0.162 r_symmetry_vdw_refined 0.151 r_chiral_restr 0.102 r_nbtor_other 0.086 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4438 Nucleic Acid Atoms 527 Solvent Atoms 627 Heterogen Atoms 2
Software Software Software Name Purpose CrystalClear data collection CrystalClear data reduction SOLVE phasing REFMAC refinement CrystalClear data scaling