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GID4 in complex with IGLWKS peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6CCR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 291 20% (w/v) PEG 3350 and 8% (v/v) Tacsimate pH 7.0
Crystal Properties Matthews coefficient Solvent content 2.41 48.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.122 α = 68.228 b = 51.19 β = 89.119 c = 55.447 γ = 69.079
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 2018-04-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.97900 APS 24-ID-E
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 1.67 51.02 91.4 0.033 0.044 0.03 0.999 11.6 2 40219
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 1.67 1.7 88.5 0.713 0.967 0.649 0.588 1.8
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 6CCR 1.75 51.005 35093 1737 91.722 0.194 0.1926 0.1952 0.2266 0.2265 34.874
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] 0.583 -0.548 -0.604 -0.191 0.065 -0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.911 r_dihedral_angle_4_deg 22.8 r_dihedral_angle_3_deg 13.441 r_dihedral_angle_1_deg 7.948 r_lrange_it 4.205 r_lrange_other 4.194 r_scangle_it 2.417 r_scangle_other 2.416 r_mcangle_it 2.036 r_mcangle_other 2.036
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.911 r_dihedral_angle_4_deg 22.8 r_dihedral_angle_3_deg 13.441 r_dihedral_angle_1_deg 7.948 r_lrange_it 4.205 r_lrange_other 4.194 r_scangle_it 2.417 r_scangle_other 2.416 r_mcangle_it 2.036 r_mcangle_other 2.036 r_angle_refined_deg 1.68 r_scbond_it 1.544 r_scbond_other 1.544 r_angle_other_deg 1.448 r_mcbond_it 1.323 r_mcbond_other 1.322 r_nbd_refined 0.214 r_nbtor_refined 0.187 r_symmetry_nbd_other 0.184 r_nbd_other 0.182 r_symmetry_nbd_refined 0.158 r_xyhbond_nbd_refined 0.148 r_chiral_restr 0.085 r_symmetry_nbtor_other 0.079 r_symmetry_xyhbond_nbd_refined 0.05 r_symmetry_xyhbond_nbd_other 0.038 r_bond_refined_d 0.011 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2725 Nucleic Acid Atoms Solvent Atoms 56 Heterogen Atoms 16
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction PHASER phasing