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Crystal structure of human monoamine oxidase B (MAO B) in complex with chlorophenyl-chromone-carboxamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2V5Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 12% PEG4000, 100 mM ADA buffer pH 6.5, 70 mM lithium sulphate
Crystal Properties Matthews coefficient Solvent content 2.67 53.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 131.41 α = 90 b = 221.991 β = 90 c = 86.106 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 PIXEL DECTRIS PILATUS 2M-F 2016-10-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 0.993 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.6 47.3 99.9 0.114 0.09 10.1 4.5 164973
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.63
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 2v5z 1.6 47.2 160785 4185 99.89 0.16588 0.16524 0.1767 0.19078 0.2005 RANDOM 17.919
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] 0.98 -0.49 -0.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.592 r_dihedral_angle_4_deg 13.583 r_dihedral_angle_3_deg 12.502 r_dihedral_angle_1_deg 6.05 r_long_range_B_refined 4.597 r_long_range_B_other 4.245 r_scangle_other 2.529 r_mcangle_it 1.6 r_mcangle_other 1.6 r_scbond_it 1.57
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.592 r_dihedral_angle_4_deg 13.583 r_dihedral_angle_3_deg 12.502 r_dihedral_angle_1_deg 6.05 r_long_range_B_refined 4.597 r_long_range_B_other 4.245 r_scangle_other 2.529 r_mcangle_it 1.6 r_mcangle_other 1.6 r_scbond_it 1.57 r_scbond_other 1.57 r_angle_other_deg 1.493 r_angle_refined_deg 1.418 r_mcbond_it 0.97 r_mcbond_other 0.97 r_chiral_restr 0.081 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7926 Nucleic Acid Atoms Solvent Atoms 1051 Heterogen Atoms 186
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling REFMAC phasing