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CYP51 from Acanthamoeba castellanii in complex with the tetrazole-based IND inhibitor VT-1161(VT1)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7UWP PDB entry 7UWP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.7 298 18% PEG8000, 0.1 M sodium citrate, 0.34 mM n-dodecyl-b-D-maltoside 5.5 mM TCEP
Crystal Properties Matthews coefficient Solvent content 3.04 59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.453 α = 81.22 b = 99.304 β = 84.08 c = 107.915 γ = 60.08
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 RAYONIX MX-300 Be lens 2022-09-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97857 APS 21-ID-G
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 2.28 30 98.3 0.04 0.993 25 3.9 118963 32.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.28 2.32 1.02 0.539 1.7
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 7UWP 2.29 29.89 118963 6472 79 0.2132 0.2126 0.224 0.2343 RANDOM 44.581
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] -0.01 0.01 -0.01 -0.01 -0.01 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.091 r_dihedral_angle_1_deg 8.092 r_dihedral_angle_2_deg 6.672 r_angle_refined_deg 0.868 r_angle_other_deg 0.604 r_chiral_restr 0.041 r_bond_other_d 0.026 r_gen_planes_refined 0.01 r_bond_refined_d 0.004 r_gen_planes_other 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 19896 Nucleic Acid Atoms Solvent Atoms 449 Heterogen Atoms 480
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-3000 data reduction HKL-3000 data scaling PHASER phasing