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Crystal Structure of Trypanosoma brucei ATG8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 289 3 uL of the protein solution (8 mg ml-1 protein in 100 mM Tris/HCl buffer, pH 6.5) with 3 uL of precipitating solution (22% v/v PEG 4000, 200 mM ammonia sulfate, 100 mM MES, pH 6.5). Droplets were equilibrated against 500 uL of precipitating solution, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.73 55.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.1 α = 90 b = 48.6 β = 90 c = 127.92 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 100 2008-09-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 5.2R 1.0 ELETTRA 5.2R
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 2.3 25 13511
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.3 20 12834 677 97.22 0.23773 0.23398 0.2296 0.30959 0.3023 RANDOM 32.085
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] -0.17 -0.22 0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.935 r_dihedral_angle_4_deg 23.075 r_dihedral_angle_3_deg 19.049 r_dihedral_angle_1_deg 7.414 r_angle_refined_deg 1.414 r_nbtor_refined 0.297 r_nbd_refined 0.191 r_xyhbond_nbd_refined 0.178 r_symmetry_vdw_refined 0.176 r_chiral_restr 0.124
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.935 r_dihedral_angle_4_deg 23.075 r_dihedral_angle_3_deg 19.049 r_dihedral_angle_1_deg 7.414 r_angle_refined_deg 1.414 r_nbtor_refined 0.297 r_nbd_refined 0.191 r_xyhbond_nbd_refined 0.178 r_symmetry_vdw_refined 0.176 r_chiral_restr 0.124 r_symmetry_hbond_refined 0.103 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 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_it r_mcbond_other r_mcangle_it r_scbond_it r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1861 Nucleic Acid Atoms Solvent Atoms 161 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement