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AMCase in complex with Compound 5
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 2.03 39.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.558 α = 90 b = 89.482 β = 90 c = 126.48 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 1.8 50 65507
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 1.8 30.684 62028 3292 96.68 0.17691 0.17573 0.1761 0.19876 0.1994 RANDOM 8.944
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] 0.09 -0.17 0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.218 r_dihedral_angle_4_deg 19.165 r_dihedral_angle_3_deg 11.156 r_dihedral_angle_1_deg 5.013 r_scangle_it 1.235 r_angle_refined_deg 0.964 r_scbond_it 0.799 r_mcangle_it 0.486 r_nbtor_refined 0.305 r_mcbond_it 0.291
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.218 r_dihedral_angle_4_deg 19.165 r_dihedral_angle_3_deg 11.156 r_dihedral_angle_1_deg 5.013 r_scangle_it 1.235 r_angle_refined_deg 0.964 r_scbond_it 0.799 r_mcangle_it 0.486 r_nbtor_refined 0.305 r_mcbond_it 0.291 r_nbd_refined 0.176 r_symmetry_vdw_refined 0.141 r_xyhbond_nbd_refined 0.075 r_symmetry_hbond_refined 0.075 r_chiral_restr 0.071 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 589 Heterogen Atoms 48
Software Software Software Name Purpose AMoRE phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling