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Crystal Structure of the P107V-MauG/pre-Methylamine Dehydrogenase Complex
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 Drops contained 1uL protein with 3uL reservoir solution. Protein solution: 100uM P107V-MauG and 50uM preMADH in 10mM potassium phosphate pH 7.5. Reservoir solution contained: 23% w/v PEG 8000, 0.1M sodium acetate, 0.1M MES pH 6.4., VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.36 47.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.606 α = 67.05 b = 89.001 β = 79.51 c = 104.812 γ = 79.72
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) 2011-06-29 M 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 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 1.86 50 97 0.039 21.1 2.4 149957 145458 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.86 1.9 86.4 0.118 7.7 2.3 7530
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 3L4M 1.86 33.89 143601 138130 7327 96.19 0.13355 0.13136 0.1408 0.17433 0.1833 RANDOM 19.366
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.977 r_dihedral_angle_4_deg 16.718 r_dihedral_angle_3_deg 13.41 r_dihedral_angle_1_deg 6.355 r_scangle_it 4.689 r_scbond_it 3.067 r_angle_refined_deg 2.085 r_mcangle_it 1.893 r_mcbond_it 1.178 r_chiral_restr 0.204
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.977 r_dihedral_angle_4_deg 16.718 r_dihedral_angle_3_deg 13.41 r_dihedral_angle_1_deg 6.355 r_scangle_it 4.689 r_scbond_it 3.067 r_angle_refined_deg 2.085 r_mcangle_it 1.893 r_mcbond_it 1.178 r_chiral_restr 0.204 r_bond_refined_d 0.025 r_gen_planes_refined 0.012
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13179 Nucleic Acid Atoms Solvent Atoms 2107 Heterogen Atoms 237
Software Software Software Name Purpose Blu-Ice data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing