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Nucleotide-free Get3 in two open forms
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IBG PDB entry 3IBG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.3 277.15 0.1 M MES, pH 5.3, 0.1 M magnesium chloride, 21% PEG3350
Crystal Properties Matthews coefficient Solvent content 2.42 49.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.138 α = 90 b = 102.605 β = 90 c = 138.801 γ = 90
Symmetry Space Group P 21 21 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 PILATUS 6M 2021-02-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.97946 SSRL BL12-2
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 2.77 50 84.2 0.994 17.9 11.5 17087
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 2.77 2.82 0.511
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 PDB entry 3IBG 3 28.11 14025 709 91.16 0.2958 0.29314 0.2919 0.3483 0.3437 RANDOM 44.526
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] 1.68 -0.21 -1.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.827 r_dihedral_angle_3_deg 12.332 r_dihedral_angle_4_deg 10.707 r_dihedral_angle_1_deg 4.244 r_long_range_B_refined 3.533 r_long_range_B_other 3.533 r_mcangle_it 1.782 r_mcangle_other 1.782 r_angle_refined_deg 1.152 r_scangle_other 1.069
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.827 r_dihedral_angle_3_deg 12.332 r_dihedral_angle_4_deg 10.707 r_dihedral_angle_1_deg 4.244 r_long_range_B_refined 3.533 r_long_range_B_other 3.533 r_mcangle_it 1.782 r_mcangle_other 1.782 r_angle_refined_deg 1.152 r_scangle_other 1.069 r_angle_other_deg 1.015 r_mcbond_it 0.955 r_mcbond_other 0.954 r_scbond_it 0.535 r_scbond_other 0.535 r_chiral_restr 0.032 r_bond_refined_d 0.002 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 5072 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction SCALEPACK data scaling PHASER phasing