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Crystal Structure of the P107C-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 0.1M MES pH 6.4, 0.1M sodium acetate, 24-30 % w/v PEG 8000, vapor diffusion, hanging drop, temperature 293K, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.38 48.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.851 α = 116.21 b = 88.53 β = 91.83 c = 107.698 γ = 99.35
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) 2010-11-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.03320 APS 23-ID-D
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 2.52 50 97.16 0.062 13.85 2.2 61043 59309 -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) 1 2.52 2.56 94.9 0.241 3.44 2.1
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 FOURIER SYNTHESIS THROUGHOUT 3L4M 2.52 47.86 61043 56313 2992 96.89 0.17792 0.17445 0.1871 0.24339 0.2546 RANDOM 52.772
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] -0.7 -2.2 -1.21 4.3 3.46 -1.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.622 r_dihedral_angle_4_deg 17.841 r_dihedral_angle_3_deg 16.563 r_dihedral_angle_1_deg 6.846 r_scangle_it 2.963 r_scbond_it 1.831 r_angle_refined_deg 1.561 r_mcangle_it 1.268 r_mcbond_it 0.681 r_chiral_restr 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.622 r_dihedral_angle_4_deg 17.841 r_dihedral_angle_3_deg 16.563 r_dihedral_angle_1_deg 6.846 r_scangle_it 2.963 r_scbond_it 1.831 r_angle_refined_deg 1.561 r_mcangle_it 1.268 r_mcbond_it 0.681 r_chiral_restr 0.11 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13273 Nucleic Acid Atoms Solvent Atoms 388 Heterogen Atoms 198
Software Software Software Name Purpose Blu-Ice data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing