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Crystal structure of leucine-rich repeat domain of APL1B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.2 293 0.1 M SODIUM ACETATE, 0.1 M LITHIUM SULFATE, 1.0 M AMMONIUM PHOSPHATE
Crystal Properties Matthews coefficient Solvent content 2.99 58.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.423 α = 90 b = 74.956 β = 90 c = 214.37 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 PIXEL PSI PILATUS 6M 2013-03-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.1 NSLS X25
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 1.74 107.18 89.92 0.043 36.7 6.1 91036 91036 -1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.74 1.79 51.05 0.53 2.6 4.4
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 THROUGHOUT 1.74 107.18 91036 4796 89.92 0.18822 0.18659 0.1934 0.21964 0.2249 RANDOM 28.944
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 0.3 -0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.522 r_dihedral_angle_4_deg 17.249 r_dihedral_angle_3_deg 11.596 r_long_range_B_refined 7.823 r_long_range_B_other 7.663 r_dihedral_angle_1_deg 5.56 r_scangle_other 2.133 r_mcangle_it 1.839 r_mcangle_other 1.838 r_scbond_it 1.327
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.522 r_dihedral_angle_4_deg 17.249 r_dihedral_angle_3_deg 11.596 r_long_range_B_refined 7.823 r_long_range_B_other 7.663 r_dihedral_angle_1_deg 5.56 r_scangle_other 2.133 r_mcangle_it 1.839 r_mcangle_other 1.838 r_scbond_it 1.327 r_scbond_other 1.32 r_angle_refined_deg 1.314 r_mcbond_it 1.041 r_mcbond_other 1.041 r_angle_other_deg 0.762 r_chiral_restr 0.069 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 5316 Nucleic Acid Atoms Solvent Atoms 772 Heterogen Atoms 118
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing