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The rationally designed catalytically inactive mutant Mth0212(D151N)
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 6.5 293 reservoir solution: 15 % (w/v) PEG 3350, 15mM sodium cacodylate pH 6.5, 25mM MnCl2; protein solution: 120mM NaCl, 2mM DTT, 8mM HEPES-NaOH pH 7.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.5 50.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.31 α = 90 b = 60.31 β = 90 c = 149.45 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 MAR CCD 165 mm 2006-09-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 0.97900 EMBL/DESY, HAMBURG BW7A
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 2.4 30.39 99.8 0.066 15.7 4.1 12026 54.7
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) 2.4 2.53 100 0.265 4.1 4.1
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3FZI 2.4 29.56 11971 578 99.71 0.22302 0.2201 0.27996 0.2742 RANDOM 39.781
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] -0.83 -0.41 -0.83 1.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.051 r_dihedral_angle_3_deg 17.594 r_dihedral_angle_4_deg 17.225 r_dihedral_angle_1_deg 6.974 r_scangle_it 2.196 r_angle_refined_deg 1.425 r_scbond_it 1.404 r_mcangle_it 1.243 r_mcbond_it 0.726 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.051 r_dihedral_angle_3_deg 17.594 r_dihedral_angle_4_deg 17.225 r_dihedral_angle_1_deg 6.974 r_scangle_it 2.196 r_angle_refined_deg 1.425 r_scbond_it 1.404 r_mcangle_it 1.243 r_mcbond_it 0.726 r_nbtor_refined 0.308 r_nbd_refined 0.196 r_symmetry_vdw_refined 0.174 r_symmetry_hbond_refined 0.162 r_xyhbond_nbd_refined 0.161 r_chiral_restr 0.107 r_bond_refined_d 0.012 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2127 Nucleic Acid Atoms Solvent Atoms 100 Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction SCALA data scaling MOLREP phasing