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Structure of a leucinostatin derivative determined by host lattice display : L1E4V1 construct
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6QFK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.43 277 2.55 % PEG20000,
26.72 % MPD,
0.2M NaCl, 0.01M MnCl2,
0.1M MES, pH 6.43
Crystal Properties Matthews coefficient Solvent content 4.44 72.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 192.757 α = 90 b = 192.757 β = 90 c = 122.834 γ = 120
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 EIGER X 16M 2021-03-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.0 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 2.36 98 94.8 0.227 0.237 0.069 0.996 8.8 11.9 96740
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.36 2.47 51 0.575 0.599
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 FOURIER SYNTHESIS THROUGHOUT 6QFK 2.358 34.52 96703 4853 90.6 0.1647 0.1632 0.1569 0.1928 0.1847 RANDOM 51.85
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] -0.1912 -0.1912 0.3823
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 17.04 t_omega_torsion 3.58 t_angle_deg 1.02 t_bond_d 0.008 t_dihedral_angle_d t_gen_planes t_it t_chiral_improper_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10338 Nucleic Acid Atoms Solvent Atoms 1251 Heterogen Atoms 137
Software Software Software Name Purpose BUSTER refinement autoPROC data reduction autoPROC data scaling BUSTER phasing