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Crystal structure of sterol 14-alpha demethylase (CYP51B) from a pathogenic filamentous fungus Aspergillus fumigatus in complex with voriconazole
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4UYL PDB ENTRY 4UYL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.4 pH 7.4
Crystal Properties Matthews coefficient Solvent content 2.88 57.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.193 α = 90 b = 109.193 β = 90 c = 90.211 γ = 120
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 MARRESEARCH BE LENSES DIAMOND LAUE 2014-07-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F APS 21-ID-F
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 2.55 30 99.8 0.05 18.9 4.9 36885 2 68.3
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 2.55 2.64 100 0.62 2.1 4.2
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 4UYL 2.55 30 36885 1939 99.31 0.21108 0.20959 0.2166 0.23891 0.2375 RANDOM 78.586
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] 0.03 0.02 0.03 -0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.841 r_dihedral_angle_4_deg 18.843 r_dihedral_angle_3_deg 17.084 r_mcangle_it 10.033 r_dihedral_angle_1_deg 8.206 r_scbond_it 7.421 r_mcbond_it 7.224 r_mcbond_other 7.223 r_angle_refined_deg 1.025 r_angle_other_deg 0.697
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.841 r_dihedral_angle_4_deg 18.843 r_dihedral_angle_3_deg 17.084 r_mcangle_it 10.033 r_dihedral_angle_1_deg 8.206 r_scbond_it 7.421 r_mcbond_it 7.224 r_mcbond_other 7.223 r_angle_refined_deg 1.025 r_angle_other_deg 0.697 r_chiral_restr 0.074 r_gen_planes_refined 0.012 r_gen_planes_other 0.01 r_bond_other_d 0.005 r_bond_refined_d 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_mcangle_other r_scbond_other r_scangle_it 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 7504 Nucleic Acid Atoms Solvent Atoms 163 Heterogen Atoms 136
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing