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Structure of the ectodomain of the human Type 1 insulin-like growth factor receptor in complex with IGF-I
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5U8R
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 1.2 M ammonium sulfate, 0.1 M imidazole-malate pH 7.0. IGF-1 was included by soaking directly into the mother crystal. For full details see the primary citation.
Crystal Properties Matthews coefficient Solvent content 3.84 67.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.69 α = 90 b = 197.66 β = 90 c = 117.65 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 CCD ADSC QUANTUM 315r 2016-08-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.9537 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 3.27 50 98.6 0.19 0.775 9.1 7.2 32228 110.958573147
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.27 3.46 92.5 2.07 0.775 0.9 6.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 5U8R 3.27104018461 22.1725 1.32594454353 32110 1524 98.5725249424 0.261887829198 0.259826709676 0.2607 0.303184371053 0.3059 177.857907853
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 11.5945734939 f_angle_d 0.519669722202 f_chiral_restr 0.0441998690634 f_plane_restr 0.00300268656065 f_bond_d 0.00188832800307
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8537 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 167
Software Software Software Name Purpose phenix.refine refinement PHENIX refinement XDS data reduction XSCALE data scaling PHASER phasing