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Crystal Structure of the MauG/pre-Methylamine Dehydrogenase Complex After Treatment with Hydrogen Peroxide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3L4M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.4 293 0.1M MES pH 6.4, 0.1M sodium acetate, 24-30 % w/v PEG 8000; followed by reaction of the crystal with hydrogen peroxide immediately prior to flash cooling., VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.29 46.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.527 α = 109.94 b = 83.524 β = 91.54 c = 107.782 γ = 105.78
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 300 mm CCD BIOMORPH MIRRORS (KIRKPATRICK-BAEZ CONFIGURATION) 2009-08-17 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.03320 APS 23-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.96 50 97.7 0.075 0.075 17.1 3.9 123424 120574 -3 36.09
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 1.96 1.99 92.5 0.524 2.1 3.2 5673
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 Difference Fourier THROUGHOUT 3l4m 2.046 38.2 109575 106312 5304 97.02 0.145 0.142 0.1561 0.194 0.2045 RANDOM 21.828
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] -0.02 0.07 0.06 0.05 -0.02 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.067 r_dihedral_angle_4_deg 19.448 r_dihedral_angle_3_deg 15.441 r_dihedral_angle_1_deg 6.722 r_scangle_it 4.42 r_scbond_it 2.963 r_angle_refined_deg 1.971 r_mcangle_it 1.716 r_mcbond_it 1.036 r_chiral_restr 0.138
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.067 r_dihedral_angle_4_deg 19.448 r_dihedral_angle_3_deg 15.441 r_dihedral_angle_1_deg 6.722 r_scangle_it 4.42 r_scbond_it 2.963 r_angle_refined_deg 1.971 r_mcangle_it 1.716 r_mcbond_it 1.036 r_chiral_restr 0.138 r_bond_refined_d 0.023 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13228 Nucleic Acid Atoms Solvent Atoms 1268 Heterogen Atoms 207
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection HKL-2000 data reduction HKL-2000 data scaling