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Crystal structure of EstG in complex with tantalum cluster
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CI8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8.5 298 20% PEG500 MME, 10% PEG20000, 0.1 M Tris/Bicine pH 8.5 and 90 mM mixture of sodium nitrate, sodium phosphate dibasic and ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 3.64 66.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 111.765 α = 90 b = 111.765 β = 90 c = 57.429 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 277 PIXEL DECTRIS EIGER X 9M 2021-07-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON OTHER 0.92009
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 2.62 28.71 99.5 0.107 0.113 0.037 0.998 16.9 9.1 21379
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.62 2.75 96.9 0.76 0.811 0.278 0.798 8.3
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1CI8 2.62 27.96 20214 1150 99.49 0.1919 0.1896 0.2336 0.2113 RANDOM 49.622
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] 0.49 0.49 -0.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.035 r_dihedral_angle_4_deg 20.25 r_dihedral_angle_3_deg 18.979 r_dihedral_angle_1_deg 7.585 r_angle_refined_deg 1.725 r_angle_other_deg 1.269 r_chiral_restr 0.075 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.035 r_dihedral_angle_4_deg 20.25 r_dihedral_angle_3_deg 18.979 r_dihedral_angle_1_deg 7.585 r_angle_refined_deg 1.725 r_angle_other_deg 1.269 r_chiral_restr 0.075 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3032 Nucleic Acid Atoms Solvent Atoms 10 Heterogen Atoms 42
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction PHASER phasing