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Crystal structure of human monoamine oxidase B (MAO B) in complex with pioglitazone
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% PEG 4000, 100 MM ADA PH 6.5, 70 MM LITHIUM SULPHATE
Crystal Properties Matthews coefficient Solvent content 2.72 52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 131.92 α = 90 b = 223.67 β = 90 c = 86.78 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 2011-04-27 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 1.9 39 100 0.08 12.7 4.2 102915 1
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 1.9 2 100 0.31 4.6 4.1
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2V5Z 1.89 38.28 100236 2586 99.9 0.17869 0.17793 0.2081 0.2169 RANDOM 16.877
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] 0.72 -0.42 -0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.857 r_dihedral_angle_4_deg 13.582 r_dihedral_angle_3_deg 13.44 r_dihedral_angle_1_deg 5.518 r_scangle_it 2.807 r_scbond_it 1.673 r_angle_refined_deg 1.199 r_mcangle_it 0.99 r_mcbond_it 0.511 r_chiral_restr 0.081
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.857 r_dihedral_angle_4_deg 13.582 r_dihedral_angle_3_deg 13.44 r_dihedral_angle_1_deg 5.518 r_scangle_it 2.807 r_scbond_it 1.673 r_angle_refined_deg 1.199 r_mcangle_it 0.99 r_mcbond_it 0.511 r_chiral_restr 0.081 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 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 7914 Nucleic Acid Atoms Solvent Atoms 695 Heterogen Atoms 156
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing