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Mre11 Rad50 binding domain bound to Rad50
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1II8 PDB ENTRY 1II8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 100 mM Tris, 200-300 mM lithium sulfate, 12-13% PEG3350, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 4.48 72.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 116.041 α = 90 b = 116.041 β = 90 c = 109.853 γ = 120
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 2003-05-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 SSRL BL11-1
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 3.4 100 91.5 0.109 14.2 6.6 11608 10679 -3 -3
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) 3.4 3.488 56.39 0.335 2 2.2
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 PDB ENTRY 1II8 3.4 50 11648 10142 514 91.63 0.21432 0.21129 0.1883 0.27444 0.2464 RANDOM 99.954
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] -0.73 -0.37 -0.73 1.1
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 50.888 r_dihedral_angle_2_deg 40.306 r_scbond_it 40.055 r_mcangle_it 26.937 r_dihedral_angle_3_deg 20.621 r_mcbond_it 19.848 r_dihedral_angle_4_deg 16.647 r_dihedral_angle_1_deg 5.343 r_angle_refined_deg 1.031 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 50.888 r_dihedral_angle_2_deg 40.306 r_scbond_it 40.055 r_mcangle_it 26.937 r_dihedral_angle_3_deg 20.621 r_mcbond_it 19.848 r_dihedral_angle_4_deg 16.647 r_dihedral_angle_1_deg 5.343 r_angle_refined_deg 1.031 r_nbtor_refined 0.304 r_symmetry_hbond_refined 0.249 r_nbd_refined 0.23 r_xyhbond_nbd_refined 0.169 r_symmetry_vdw_refined 0.169 r_chiral_restr 0.069 r_bond_refined_d 0.006 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3339 Nucleic Acid Atoms Solvent Atoms 7 Heterogen Atoms 10
Software Software Software Name Purpose Blu-Ice data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling