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Characterization and crystal structure of the type IIG restriction endonuclease BpuSI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 298 1.8 M ammonium sulfate, 0.1 M Bis-Tris, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 4.24 70.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 213.472 α = 90 b = 215.732 β = 90 c = 73.71 γ = 90
Symmetry Space Group C 2 2 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 2010-10-02 M SINGLE WAVELENGTH 2 1 x-ray M SINGLE WAVELENGTH 3 1 x-ray CCD ADSC QUANTUM 315 M SINGLE WAVELENGTH 4 1 x-ray CCD ADSC QUANTUM 315r M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 ALS 5.0.1 2 ROTATING ANODE RIGAKU MICROMAX-007 HF 3 SYNCHROTRON ALS BEAMLINE 5.0.2 ALS 5.0.2 4 SYNCHROTRON ALS BEAMLINE 8.2.1 ALS 8.2.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.2 100 79 0.095 0.095 11.5 4.2 89220 70485 1 2 42
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.35 2.46 65.1 0.592 0.592 1.3 2.1 5717
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (I) 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 MIR THROUGHOUT 2.35 30 1 67610 62712 3327 92.76 0.21517 0.21242 0.2092 0.2677 0.2633 RANDOM 43.927
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] 1.08 0.2 -1.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.746 r_dihedral_angle_4_deg 17.216 r_dihedral_angle_3_deg 16.315 r_dihedral_angle_1_deg 5.478 r_scangle_it 3.291 r_scbond_it 2.015 r_mcangle_it 1.34 r_angle_refined_deg 1.236 r_rigid_bond_restr 0.94 r_mcbond_it 0.714
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.746 r_dihedral_angle_4_deg 17.216 r_dihedral_angle_3_deg 16.315 r_dihedral_angle_1_deg 5.478 r_scangle_it 3.291 r_scbond_it 2.015 r_mcangle_it 1.34 r_angle_refined_deg 1.236 r_rigid_bond_restr 0.94 r_mcbond_it 0.714 r_chiral_restr 0.086 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6972 Nucleic Acid Atoms Solvent Atoms 316 Heterogen Atoms 145
Software Software Software Name Purpose ADSC data collection SHELXS phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling