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Crystal structure of LC3B in complex with FYCO1 LIR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 2M ammonium sulfate, 0.1M sodium citrate tribasic dihydrate (pH 5.6), 0.2M potassium sodium tartrate tetrahydrate
Crystal Properties Matthews coefficient Solvent content 2.17 43.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 113.412 α = 90 b = 44.613 β = 120.29 c = 63.582 γ = 90
Symmetry Space Group C 1 2 1
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 DECTRIS PILATUS3 6M 2015-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0000 SPring-8 BL41XU
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 1.9 50 98.1 20.2 3.4 21371
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 1.9 50 20284 1087 97.99 0.19088 0.1881 0.1957 0.24418 0.2489 RANDOM 40.93
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] -1.58 0.33 0.01 0.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.605 r_dihedral_angle_4_deg 21.627 r_dihedral_angle_3_deg 15.685 r_long_range_B_refined 8.711 r_long_range_B_other 8.709 r_scangle_other 7.008 r_dihedral_angle_1_deg 6.99 r_mcangle_it 5.016 r_mcangle_other 5.014 r_scbond_it 4.653
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.605 r_dihedral_angle_4_deg 21.627 r_dihedral_angle_3_deg 15.685 r_long_range_B_refined 8.711 r_long_range_B_other 8.709 r_scangle_other 7.008 r_dihedral_angle_1_deg 6.99 r_mcangle_it 5.016 r_mcangle_other 5.014 r_scbond_it 4.653 r_scbond_other 4.636 r_mcbond_it 3.809 r_mcbond_other 3.806 r_angle_refined_deg 1.995 r_angle_other_deg 0.943 r_chiral_restr 0.129 r_bond_refined_d 0.019 r_gen_planes_refined 0.009 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 2254 Nucleic Acid Atoms Solvent Atoms 50 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing