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Structure of an N-terminal truncation of Deinococcus radiodurans RecD2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 13-18% ethanol, 100mM Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.62 53.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.63 α = 90 b = 89.63 β = 90 c = 131.71 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 ADSC QUANTUM 315 2007-09-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 1.07225 ESRF ID23-1
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 2.2 50 98 0.038 15.2 2.4 33616 32947
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 2.2 2.3 98 0.321 3.2 2.25 4035
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MIR THROUGHOUT 2.2 20.7 32946 30278 2668 98.19 0.23541 0.23541 0.2308 0.28744 RANDOM 43.288
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] 3.38 -4.09 0.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.963 r_dihedral_angle_3_deg 18.942 r_dihedral_angle_4_deg 16.719 r_dihedral_angle_1_deg 5.759 r_scangle_it 1.515 r_angle_refined_deg 1.246 r_scbond_it 1.004 r_angle_other_deg 0.889 r_mcangle_it 0.607 r_mcbond_it 0.499
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.963 r_dihedral_angle_3_deg 18.942 r_dihedral_angle_4_deg 16.719 r_dihedral_angle_1_deg 5.759 r_scangle_it 1.515 r_angle_refined_deg 1.246 r_scbond_it 1.004 r_angle_other_deg 0.889 r_mcangle_it 0.607 r_mcbond_it 0.499 r_symmetry_vdw_other 0.263 r_xyhbond_nbd_refined 0.205 r_nbd_refined 0.201 r_nbd_other 0.2 r_nbtor_refined 0.169 r_symmetry_vdw_refined 0.146 r_symmetry_hbond_refined 0.095 r_mcbond_other 0.092 r_nbtor_other 0.088 r_chiral_restr 0.07 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3889 Nucleic Acid Atoms Solvent Atoms 265 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DNA data collection XDS data reduction XDS data scaling SHARP phasing