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Dimeric parallel G-quadruplex formed by d(G4C2)4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7ECG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 289 0.1 M Potassium chloride, 0.05 M Sodium cacodylate trihydrate at pH 6.0, 16% w/v Polyethylene glycol 1,000, and 0.0005 M Spermine
Crystal Properties Matthews coefficient Solvent content 2.26 45.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.036 α = 90 b = 64.036 β = 90 c = 33.293 γ = 90
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 R 1M 2024-05-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.91776 SSRF BL19U1
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 1.94 50 99.8 0.148 0.154 0.999 12.16 12.76 5104
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 1.94 2.06 99.4 2.417 2.511 0.507 1.14 13.52
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 7ECG 1.94 29.56 4591 512 99.84 0.24635 0.24222 0.2483 0.2838 0.2869 RANDOM 47.412
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] -1.8 -1.8 3.59
RMS Deviations Key Refinement Restraint Deviation r_scangle_other 6.906 r_long_range_B_other 6.74 r_long_range_B_refined 6.738 r_scbond_it 4.471 r_scbond_other 4.467 r_angle_refined_deg 1.394 r_angle_other_deg 0.439 r_chiral_restr 0.044 r_gen_planes_refined 0.01 r_bond_refined_d 0.003
RMS Deviations Key Refinement Restraint Deviation r_scangle_other 6.906 r_long_range_B_other 6.74 r_long_range_B_refined 6.738 r_scbond_it 4.471 r_scbond_other 4.467 r_angle_refined_deg 1.394 r_angle_other_deg 0.439 r_chiral_restr 0.044 r_gen_planes_refined 0.01 r_bond_refined_d 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 501 Solvent Atoms 23 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement XDS data scaling XDS data reduction PHASER phasing PDB_EXTRACT data extraction