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Crystal structure of RagA-Q66L-GTP/RagC-S75N-GDP GTPase heterodimer complex
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 100mM MOPSO, Bis-Tris pH 6.5, 40mM polyamines ( mixture of spermine
tetrahydrochloride, spermidine trihydrochloride, 1,4. diaminobutane dihydrochloride,
0.1 M D/L-ornithine monohydrochloride), 10% (w/v) PEG 8000. 20% (v/v) 1,5 -
Pentanediol and 24 % (v/v) glycerol.
Crystal Properties Matthews coefficient Solvent content 2.36 47.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.504 α = 90 b = 81.439 β = 90 c = 246.033 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 DECTRIS PILATUS3 6M 2018-05-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.9762 ESRF ID30B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 2.5 49.29 99.8 0.07 0.077 0.999 16.69 6.558 50589 70.517
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.65 99 1.047 1.136 0.654 1.94 6.671
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 MOLECULAR REPLACEMENT THROUGHOUT 2.5 49.29 48131 2458 99.72 0.2127 0.209 0.2141 0.2866 0.2903 RANDOM 72.597
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] 0.96 -0.42 -0.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.404 r_dihedral_angle_3_deg 19.199 r_dihedral_angle_4_deg 16.992 r_dihedral_angle_1_deg 8.264 r_angle_refined_deg 1.704 r_angle_other_deg 1.244 r_chiral_restr 0.074 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.404 r_dihedral_angle_3_deg 19.199 r_dihedral_angle_4_deg 16.992 r_dihedral_angle_1_deg 8.264 r_angle_refined_deg 1.704 r_angle_other_deg 1.244 r_chiral_restr 0.074 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9384 Nucleic Acid Atoms Solvent Atoms 52 Heterogen Atoms 136
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing PDB_EXTRACT data extraction