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Crystal structure of human monoamine oxidase B in complex with methylene blue and bearing the double mutation I199A-Y326A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2V5Z PDB ENTRY 2V5Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 12% PEG4000, 100 MM ADA PH 6.5, 70 MM LITHIUM SULPHATE, 8.5 MM ZWITTERGENT 3-12
Crystal Properties Matthews coefficient Solvent content 2.74 52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 131.9 α = 90 b = 224.96 β = 90 c = 86.63 γ = 90
Symmetry Space Group C 2 2 2
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 ADSC QUANTUM 210 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 2.2 50 98.2 0.11 10.8 4.4 64424 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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2V5Z 2.2 43.31 62656 1667 97.94 0.19179 0.19042 0.1915 0.24401 0.2454 RANDOM 19.776
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] 0.11 0.53 -0.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.261 r_dihedral_angle_4_deg 16.518 r_dihedral_angle_3_deg 15.45 r_dihedral_angle_1_deg 6.081 r_scangle_it 3.196 r_scbond_it 1.989 r_angle_refined_deg 1.379 r_mcangle_it 1.194 r_mcbond_it 0.63 r_chiral_restr 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.261 r_dihedral_angle_4_deg 16.518 r_dihedral_angle_3_deg 15.45 r_dihedral_angle_1_deg 6.081 r_scangle_it 3.196 r_scbond_it 1.989 r_angle_refined_deg 1.379 r_mcangle_it 1.194 r_mcbond_it 0.63 r_chiral_restr 0.09 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7894 Nucleic Acid Atoms Solvent Atoms 350 Heterogen Atoms 146
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing