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Crystal structure of Trypanosoma cruzi CYP51 bound to the inhibitor (R)-N-(3-(1H-indol-3-yl)-1-oxo-1-(pyridin-4-ylamino)propan-2-yl)-2',3, 5'-trifluoro-(1,1'-biphenyl)-4-carboxamide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2YMC PDB ENTRY 2YMC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 0.1 M AMMONIUM ACETATE, 0.1 M BIS-TRIS PH 5.5, 17% PEG 10K
Crystal Properties Matthews coefficient Solvent content 2.4 48.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 272.469 α = 90 b = 66.452 β = 110.65 c = 122.219 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD MARRESEARCH MIRRORS 2012-09-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 ALS 8.3.1
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 2.84 127.48 99.9 0.09 7 3.8 48741 1.5 83.9
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 2.84 2.99 99.9 0.72 1.5 3.8
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 2YMC 2.84 114.63 46238 2469 99.72 0.19427 0.18908 0.1893 0.29005 0.2892 RANDOM 78.461
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] -2.95 -0.17 6.66 -2.84
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 81.608 r_dihedral_angle_2_deg 40.054 r_sphericity_bonded 24.66 r_dihedral_angle_3_deg 21.775 r_dihedral_angle_4_deg 18.963 r_mcangle_it 7.159 r_dihedral_angle_1_deg 6.845 r_mcbond_it 5.316 r_mcbond_other 5.316 r_scbond_it 5.028
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 81.608 r_dihedral_angle_2_deg 40.054 r_sphericity_bonded 24.66 r_dihedral_angle_3_deg 21.775 r_dihedral_angle_4_deg 18.963 r_mcangle_it 7.159 r_dihedral_angle_1_deg 6.845 r_mcbond_it 5.316 r_mcbond_other 5.316 r_scbond_it 5.028 r_rigid_bond_restr 2.861 r_angle_refined_deg 1.57 r_angle_other_deg 0.85 r_chiral_restr 0.08 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_gen_planes_other 0.003 r_bond_other_d 0.002 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13726 Nucleic Acid Atoms Solvent Atoms 38 Heterogen Atoms 324
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing