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Crystal Structure of the W199K-MauG/pre-Methylamine Dehydrogenase Complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3L4M PDB entry 3L4M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 Drops contained 1uL protein with 2.5uL reservoir solution. Protein solution: 100uM W199K-MauG and 50uM preMADH in 10mM potassium phosphate, pH 7.5. Reservoir solution contained: 22% 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 2.27 45.9
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) 2010-03-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.03315 APS 23-ID-D
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 1.91 50 88.8 0.085 12.2 3.5 131689 116940 -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 1.91 1.96 46.6 0.42 2 2.5 6532
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 PDB entry 3L4M 1.91 39.58 128503 111052 5868 86.42 0.17597 0.17312 0.1901 0.22972 0.2405 RANDOM 33.985
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 0.09 0.01 0.18 -0.13 -0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.677 r_dihedral_angle_4_deg 17.625 r_dihedral_angle_3_deg 15.448 r_dihedral_angle_1_deg 7.116 r_scangle_it 4.458 r_scbond_it 3.098 r_angle_refined_deg 2.178 r_mcangle_it 1.732 r_mcbond_it 1.113 r_chiral_restr 0.169
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.677 r_dihedral_angle_4_deg 17.625 r_dihedral_angle_3_deg 15.448 r_dihedral_angle_1_deg 7.116 r_scangle_it 4.458 r_scbond_it 3.098 r_angle_refined_deg 2.178 r_mcangle_it 1.732 r_mcbond_it 1.113 r_chiral_restr 0.169 r_bond_refined_d 0.024 r_gen_planes_refined 0.011 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 13221 Nucleic Acid Atoms Solvent Atoms 1180 Heterogen Atoms 222
Software Software Software Name Purpose Blu-Ice data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing