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Crystal structure of RSL mutant-R17A/R108A/R199A in complex with R3F
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4CSD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 SMALL TUBES 7.5 277 20 mM Tris-HCl, 100 mM of NaCl pH 7.5, Micro centrifuge tube sequentially put with RSL solution, pure buffer, the ligand solution
Crystal Properties Matthews coefficient Solvent content 2.41 49.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.3 α = 94.12 b = 45.635 β = 117.04 c = 46.844 γ = 117.2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315r 2020-06-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U1 0.979183 SSRF BL17U1
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 1.5 39.04 93.8 0.043 0.051 0.027 0.999 14.2 3.5 40510
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.59 93.6 0.48 0.565 0.296 0.882 3.6
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 MOLECULAR REPLACEMENT THROUGHOUT 4CSD 1.55 39.04 33948 2049 91.13 0.1731 0.1715 0.1846 0.2004 0.2111 RANDOM 19.97
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] -0.01 0.01 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.05 r_dihedral_angle_3_deg 10.965 r_dihedral_angle_1_deg 7.689 r_dihedral_angle_4_deg 4.825 r_angle_refined_deg 2.227 r_angle_other_deg 1.735 r_chiral_restr 0.758 r_bond_refined_d 0.018 r_gen_planes_refined 0.015 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.05 r_dihedral_angle_3_deg 10.965 r_dihedral_angle_1_deg 7.689 r_dihedral_angle_4_deg 4.825 r_angle_refined_deg 2.227 r_angle_other_deg 1.735 r_chiral_restr 0.758 r_bond_refined_d 0.018 r_gen_planes_refined 0.015 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1969 Nucleic Acid Atoms Solvent Atoms 150 Heterogen Atoms 192
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction autoPROC data reduction PHASER phasing