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AMCase in complex with Compound 3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3FY1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.04 39.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.773 α = 90 b = 89.609 β = 90 c = 126.184 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 93 CCD ADSC QUANTUM 210 2006-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 1.0 ALS 5.0.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.1 30 41054
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 3fy1 2.1 30 38872 2073 95.3 0.20728 0.2053 0.2082 0.24504 0.2446 RANDOM 18.028
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] -0.66 0.07 0.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.188 r_dihedral_angle_4_deg 17.669 r_dihedral_angle_3_deg 12.117 r_dihedral_angle_1_deg 4.961 r_scangle_it 1.121 r_angle_refined_deg 0.97 r_scbond_it 0.706 r_mcangle_it 0.453 r_nbtor_refined 0.303 r_mcbond_it 0.269
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.188 r_dihedral_angle_4_deg 17.669 r_dihedral_angle_3_deg 12.117 r_dihedral_angle_1_deg 4.961 r_scangle_it 1.121 r_angle_refined_deg 0.97 r_scbond_it 0.706 r_mcangle_it 0.453 r_nbtor_refined 0.303 r_mcbond_it 0.269 r_nbd_refined 0.173 r_symmetry_vdw_refined 0.15 r_symmetry_hbond_refined 0.139 r_xyhbond_nbd_refined 0.101 r_chiral_restr 0.068 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5940 Nucleic Acid Atoms Solvent Atoms 301 Heterogen Atoms 32
Software Software Software Name Purpose AMoRE phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling