☰ Navigation Tabs
GID4 in complex with Compound 9
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6CD9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1 M Na HEPES pH 7.0, 15% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2 38.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.065 α = 90 b = 40.274 β = 110.38 c = 54.394 γ = 90
Symmetry Space Group P 1 21 1
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 2021-10-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, DESY BEAMLINE P11 1.03318 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 1.79 40.27 95.8 0.987 3.89 4.27 14211
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 1.79 1.9 0.028
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 2.1 35.67 8474 446 97.14 0.21471 0.21267 0.2175 0.25414 0.2578 RANDOM 32.332
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] 1.77 -1.26 -0.65 -0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 22.105 r_dihedral_angle_3_deg 18.829 r_dihedral_angle_1_deg 8.255 r_long_range_B_other 7.092 r_long_range_B_refined 7.091 r_scangle_other 5.165 r_mcangle_other 4.077 r_mcangle_it 4.069 r_scbond_it 3.212 r_scbond_other 3.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 22.105 r_dihedral_angle_3_deg 18.829 r_dihedral_angle_1_deg 8.255 r_long_range_B_other 7.092 r_long_range_B_refined 7.091 r_scangle_other 5.165 r_mcangle_other 4.077 r_mcangle_it 4.069 r_scbond_it 3.212 r_scbond_other 3.21 r_mcbond_it 2.613 r_mcbond_other 2.611 r_angle_refined_deg 1.461 r_angle_other_deg 0.463 r_chiral_restr 0.059 r_gen_planes_refined 0.008 r_bond_refined_d 0.007 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 1341 Nucleic Acid Atoms Solvent Atoms 15 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing