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Crystal structure of Streptococcus pyogenes Cas2 at pH 5.6
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4ES2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 293 30% (w/v) PEG 4000, 200mM ammonium acetate, 100mM tri-sodium citrate pH 5.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.07 40.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.803 α = 90 b = 54.803 β = 90 c = 124.013 γ = 90
Symmetry Space Group P 41 21 2
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 270 2014-04-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 7A (6B, 6C1) 0.9793 PAL/PLS 7A (6B, 6C1)
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 2.4 50 98.1 20.51 13.6 7806
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 2.4 2.49 97.8 0.624 4.43 14.3 753
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 4ES2 2.4 33 7912 7788 358 98.43 0.19863 0.19642 0.2036 0.24623 0.2586 RANDOM 59.318
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] 0.18 0.18 -0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.741 r_dihedral_angle_3_deg 14.799 r_dihedral_angle_4_deg 12.427 r_long_range_B_refined 7.873 r_long_range_B_other 7.871 r_dihedral_angle_1_deg 7.06 r_scangle_other 5.743 r_mcangle_it 4.576 r_mcangle_other 4.573 r_scbond_it 3.548
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.741 r_dihedral_angle_3_deg 14.799 r_dihedral_angle_4_deg 12.427 r_long_range_B_refined 7.873 r_long_range_B_other 7.871 r_dihedral_angle_1_deg 7.06 r_scangle_other 5.743 r_mcangle_it 4.576 r_mcangle_other 4.573 r_scbond_it 3.548 r_scbond_other 3.545 r_mcbond_it 2.977 r_mcbond_other 2.976 r_angle_refined_deg 1.637 r_angle_other_deg 0.803 r_chiral_restr 0.096 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.004 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 1354 Nucleic Acid Atoms Solvent Atoms 30 Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling