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Mth0212 in complex with a 9bp blunt end dsDNA at 1.7 Angstrom
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3FZI PDB ENTRY 3FZI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 reservoir: 30% MPD, 40mM MgCl2, 50mM KH2PO4/K2HPO4 pH 7.0; protein solution: 50mM KCl, 10mM KH2PO4/K2HPO4 pH 7.0, 1mM MgCl2, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.48 50.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.966 α = 90 b = 79.51 β = 97.76 c = 87.75 γ = 90
Symmetry Space Group P 1 21 1
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 MARMOSAIC 225 mm CCD 2007-06-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91838 BESSY 14.1
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 1.74 17 94.9 0.033 65383 -3 27.283
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 1.74 1.8 72 0.268 3.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3FZI 1.74 17 61959 3311 95.57 0.17 0.167 0.1664 0.217 0.2153 RANDOM 24.824
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] 1.22 -1.26 -2.02 0.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.046 r_dihedral_angle_4_deg 16.796 r_dihedral_angle_3_deg 15.316 r_dihedral_angle_1_deg 6.294 r_scangle_it 2.991 r_scbond_it 2.062 r_angle_refined_deg 1.553 r_mcangle_it 1.474 r_mcbond_it 0.94 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.046 r_dihedral_angle_4_deg 16.796 r_dihedral_angle_3_deg 15.316 r_dihedral_angle_1_deg 6.294 r_scangle_it 2.991 r_scbond_it 2.062 r_angle_refined_deg 1.553 r_mcangle_it 1.474 r_mcbond_it 0.94 r_nbtor_refined 0.312 r_nbd_refined 0.194 r_symmetry_hbond_refined 0.169 r_symmetry_vdw_refined 0.163 r_xyhbond_nbd_refined 0.154 r_chiral_restr 0.112 r_bond_refined_d 0.014 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4273 Nucleic Acid Atoms 361 Solvent Atoms 659 Heterogen Atoms 54
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction MOLREP phasing