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Modification dependent EcoKMcrA restriction endonuclease
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.3 294 0.1 M HEPES-CsOH, pH 7.3, 30% MPD
Crystal Properties Matthews coefficient Solvent content 2.74 55.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.045 α = 90 b = 90.383 β = 90 c = 95.406 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 MARRESEARCH 2012-06-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2) 1.22021 PETRA III, EMBL c/o DESY P14 (MX2)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) CC (Half) 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 2.85 42.2 99.1 0.069 0.072 0.999 20.96 11.5 17013 98.994
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.85 3.02 96.4 1.357 1.419 0.786 1.82 11.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 2.85 42.19 15993 1018 99.13 0.22144 0.21762 0.2181 0.28272 0.2828 RANDOM 116.679
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] 6.47 0.02 -6.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.279 r_dihedral_angle_3_deg 14.661 r_dihedral_angle_4_deg 12.726 r_long_range_B_refined 10.313 r_long_range_B_other 10.308 r_scangle_other 6.628 r_mcangle_it 6.438 r_mcangle_other 6.438 r_dihedral_angle_1_deg 5.957 r_mcbond_it 3.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.279 r_dihedral_angle_3_deg 14.661 r_dihedral_angle_4_deg 12.726 r_long_range_B_refined 10.313 r_long_range_B_other 10.308 r_scangle_other 6.628 r_mcangle_it 6.438 r_mcangle_other 6.438 r_dihedral_angle_1_deg 5.957 r_mcbond_it 3.91 r_mcbond_other 3.908 r_scbond_it 3.899 r_scbond_other 3.899 r_angle_refined_deg 1.131 r_angle_other_deg 0.891 r_chiral_restr 0.062 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4522 Nucleic Acid Atoms Solvent Atoms 51 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling SHELXDE phasing autoSHARP phasing DM phasing BUCCANEER model building PARROT phasing