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Crystal structure of the full ectodomain of human gp130: New insights into the molecular assembly of receptor complexes
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 6 298 1.5-2.0M (NH4)2SO4, 0.1M imidazole-malonate buffer, pH 6.0, EVAPORATION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 5.62 78.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.001 α = 90 b = 51.821 β = 102.17 c = 167.157 γ = 90
Symmetry Space Group P 1 21 1
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 315 2009-10-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.95369 Australian Synchrotron MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (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 3.6 163.4 99.8 0.148 4 17748 17748
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.6 3.79 0.134 1.1 4 2557
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 3.6 44.43 16833 905 99.73 0.2667 0.26318 0.255 0.33469 0.3362 RANDOM 93.969
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] -1.55 0.76 1.29 0.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.276 r_dihedral_angle_3_deg 25.458 r_dihedral_angle_4_deg 18.823 r_dihedral_angle_1_deg 10.347 r_scangle_it 2.581 r_angle_refined_deg 2.236 r_scbond_it 1.443 r_mcangle_it 0.977 r_mcbond_it 0.496 r_chiral_restr 0.139
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.276 r_dihedral_angle_3_deg 25.458 r_dihedral_angle_4_deg 18.823 r_dihedral_angle_1_deg 10.347 r_scangle_it 2.581 r_angle_refined_deg 2.236 r_scbond_it 1.443 r_mcangle_it 0.977 r_mcbond_it 0.496 r_chiral_restr 0.139 r_bond_refined_d 0.018 r_gen_planes_refined 0.01 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4439 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 262
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction XSCALE data scaling