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The Crystal Structure of LCK from Biortus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LCJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 (PEGsII-A10) 0.1M MgCl2, 0.1M MES pH6.5, 30% PEG 400
Crystal Properties Matthews coefficient Solvent content 2.19 43.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.072 α = 90 b = 57.438 β = 90 c = 67.942 γ = 90
Symmetry Space Group P 2 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 DECTRIS PILATUS 6M 2022-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL45XU 1 SPring-8 BL45XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.4 43.902 99.4 0.056 30.5 12.1 42896
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 1.4 1.42 0.354 6.9
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.4 43.902 42896 2101 99.356 0.183 0.1825 0.1825 0.2015 0.2018 17.53
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] -0.16 -0.617 0.777
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.298 r_dihedral_angle_4_deg 15.343 r_dihedral_angle_3_deg 13.151 r_dihedral_angle_1_deg 6.217 r_lrange_it 5.732 r_lrange_other 5.585 r_scangle_it 2.961 r_scangle_other 2.96 r_mcangle_other 2.322 r_mcangle_it 2.321
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.298 r_dihedral_angle_4_deg 15.343 r_dihedral_angle_3_deg 13.151 r_dihedral_angle_1_deg 6.217 r_lrange_it 5.732 r_lrange_other 5.585 r_scangle_it 2.961 r_scangle_other 2.96 r_mcangle_other 2.322 r_mcangle_it 2.321 r_scbond_it 1.788 r_scbond_other 1.787 r_mcbond_it 1.375 r_angle_refined_deg 1.366 r_mcbond_other 1.363 r_angle_other_deg 1.342 r_symmetry_xyhbond_nbd_refined 0.245 r_symmetry_nbd_refined 0.211 r_nbd_refined 0.202 r_nbd_other 0.197 r_symmetry_nbd_other 0.178 r_xyhbond_nbd_refined 0.173 r_nbtor_refined 0.171 r_symmetry_nbtor_other 0.08 r_chiral_restr 0.064 r_symmetry_xyhbond_nbd_other 0.033 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1653 Nucleic Acid Atoms Solvent Atoms 288 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing