☰ Navigation Tabs
Human GKRP complexed to AMG-3969 and S6P
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other Internal structures
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 Well buffer: 0.1M Bis-tris, 0.2M NaI, 16% PEG 8K, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.03 59.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 149.066 α = 90 b = 149.066 β = 90 c = 132.463 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD RIGAKU SATURN 92 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E DW
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.2 35.8 93.8 62711 58853 2 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 Internal structures 2.22 35.8 2 62711 58853 3101 75.17 0.21575 0.2125 0.2185 0.27676 0.2791 RANDOM 45.458
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] -0.02 -0.02 -0.02 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.676 r_dihedral_angle_4_deg 19.888 r_dihedral_angle_3_deg 18.108 r_long_range_B_refined 7.602 r_long_range_B_other 7.602 r_dihedral_angle_1_deg 6.921 r_scangle_other 5.411 r_mcangle_it 5.268 r_mcangle_other 5.268 r_scbond_it 3.643
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.676 r_dihedral_angle_4_deg 19.888 r_dihedral_angle_3_deg 18.108 r_long_range_B_refined 7.602 r_long_range_B_other 7.602 r_dihedral_angle_1_deg 6.921 r_scangle_other 5.411 r_mcangle_it 5.268 r_mcangle_other 5.268 r_scbond_it 3.643 r_scbond_other 3.556 r_mcbond_it 3.551 r_mcbond_other 3.55 r_angle_refined_deg 1.758 r_angle_other_deg 0.873 r_chiral_restr 0.097 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9075 Nucleic Acid Atoms Solvent Atoms 233 Heterogen Atoms 148
Software Software Software Name Purpose HKL-2000 data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling