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Crystal structure of 3'-5' RecJ exonuclease from M. Jannaschii
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 0.2 M Sodium citrate, 0.1 M Bis-Tris-Propane pH 8.5, 14-24 % w/v PEG 3350, 10 mM MnCl2
Crystal Properties Matthews coefficient Solvent content 3.02 59.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.07 α = 90 b = 92.07 β = 90 c = 275.76 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 PIXEL DECTRIS PILATUS 6M 2015-06-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 1.89113 EMBL/DESY, HAMBURG X13
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.8 99.9 99.2 0.082 13.7 6.9 30267
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.8 2.95 0.378 4.4
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 SIRAS THROUGHOUT 2.8 87.33 28682 1476 99.8 0.21683 0.2145 0.2143 0.26389 0.2636 RANDOM 51.281
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] 1.82 1.82 -3.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.351 r_dihedral_angle_4_deg 25.51 r_dihedral_angle_3_deg 19.106 r_long_range_B_refined 10.217 r_long_range_B_other 10.216 r_scangle_other 7.964 r_dihedral_angle_1_deg 7.504 r_mcangle_it 7.025 r_mcangle_other 7.025 r_scbond_it 5.282
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.351 r_dihedral_angle_4_deg 25.51 r_dihedral_angle_3_deg 19.106 r_long_range_B_refined 10.217 r_long_range_B_other 10.216 r_scangle_other 7.964 r_dihedral_angle_1_deg 7.504 r_mcangle_it 7.025 r_mcangle_other 7.025 r_scbond_it 5.282 r_scbond_other 5.281 r_mcbond_it 4.846 r_mcbond_other 4.846 r_angle_refined_deg 1.601 r_angle_other_deg 1.34 r_chiral_restr 0.072 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.001 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 6338 Nucleic Acid Atoms Solvent Atoms 13 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling AutoSol phasing