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Crystal structure of human cytoplasmic dynein 2 motor domain in complex with ADP.Vi
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 292 mixing equal volumes of protein (8mg/ml) and reservoir solution (4-6 % PEG 6000 and 0.1 M Tris pH 8.0), VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 5.83 78.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 136.03 α = 90 b = 487.15 β = 90 c = 276.46 γ = 90
Symmetry Space Group C 2 2 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 PIXEL PSI PILATUS 6M 2014-02-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 3.4 56.5 62.2 0.101 7.6 4.1 78411
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 MIRAS THROUGHOUT 3.41 56.6 74060 3915 62.16 0.23989 0.23746 0.2366 0.28546 0.2822 RANDOM 114.274
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] 0.05 -0.28 0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.234 r_long_range_B_refined 25.39 r_long_range_B_other 25.39 r_dihedral_angle_3_deg 17.385 r_dihedral_angle_4_deg 15.7 r_scangle_other 14.656 r_mcangle_it 13.706 r_mcangle_other 13.677 r_scbond_it 8.508 r_scbond_other 8.493
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.234 r_long_range_B_refined 25.39 r_long_range_B_other 25.39 r_dihedral_angle_3_deg 17.385 r_dihedral_angle_4_deg 15.7 r_scangle_other 14.656 r_mcangle_it 13.706 r_mcangle_other 13.677 r_scbond_it 8.508 r_scbond_other 8.493 r_mcbond_it 8.241 r_mcbond_other 8.241 r_dihedral_angle_1_deg 7.269 r_angle_refined_deg 1.548 r_angle_other_deg 0.846 r_chiral_restr 0.073 r_bond_refined_d 0.012 r_bond_other_d 0.006 r_gen_planes_refined 0.005 r_gen_planes_other 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 22697 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 119
Software Software Software Name Purpose SHARP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling