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RACB with GSP and the fragment of RIPb protein bound (parallel)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2NTY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 291 20 % w/v PEG 6,000, 100 mM HEPES pH 7.0, 200 mM Sodium Chloride
Crystal Properties Matthews coefficient Solvent content 3.16 61.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64 α = 90 b = 64 β = 90 c = 243.32 γ = 120
Symmetry Space Group P 61 2 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 PIXEL DECTRIS EIGER2 X 16M 2025-06-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, DESY BEAMLINE P11 1.03320 PETRA III, DESY P11
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.07 50 99.9 0.999 24.5 19.1 18023
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.07 2.12 99.9 0.637 1.1
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 2.07 45.8 18023 949 99.85 0.20752 0.20548 0.2139 0.24691 0.2515 RANDOM 69.415
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] -1.21 -0.6 -1.21 3.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.896 r_dihedral_angle_2_deg 10.901 r_long_range_B_other 9.58 r_long_range_B_refined 9.575 r_scangle_other 7.044 r_dihedral_angle_1_deg 7.035 r_mcangle_it 5.712 r_mcangle_other 5.71 r_scbond_it 4.653 r_scbond_other 4.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.896 r_dihedral_angle_2_deg 10.901 r_long_range_B_other 9.58 r_long_range_B_refined 9.575 r_scangle_other 7.044 r_dihedral_angle_1_deg 7.035 r_mcangle_it 5.712 r_mcangle_other 5.71 r_scbond_it 4.653 r_scbond_other 4.65 r_mcbond_other 4.087 r_mcbond_it 4.085 r_angle_refined_deg 1.672 r_angle_other_deg 0.567 r_chiral_restr 0.082 r_bond_refined_d 0.008 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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 1604 Nucleic Acid Atoms Solvent Atoms 51 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling MOLREP phasing