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Crystal structure of wildtype human Interleukin-4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HIK PDB entry 1HIK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 52% Ammonium sulfate, 0.1M Sodium citrate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.9 57.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.545 α = 90 b = 90.545 β = 90 c = 46.071 γ = 90
Symmetry Space Group P 41 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 93 CCD ADSC QUANTUM 4 2003-05-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.9500 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.8 20.5 98.7 0.058 18.6 5.2 18304 18066 33.9
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 1.8 1.9 98.5 0.23 4.6 3.6 5136
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 PDB entry 1HIK 1.8 14.94 17333 17121 926 98.78 0.21228 0.21228 0.21055 0.2088 0.24416 0.24 RANDOM 27.243
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] 0.01 0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.4 r_scangle_it 3.678 r_mcangle_it 2.837 r_scbond_it 2.361 r_mcbond_it 1.68 r_angle_refined_deg 1.597 r_symmetry_vdw_refined 0.412 r_symmetry_hbond_refined 0.317 r_nbd_refined 0.261 r_xyhbond_nbd_refined 0.253
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.4 r_scangle_it 3.678 r_mcangle_it 2.837 r_scbond_it 2.361 r_mcbond_it 1.68 r_angle_refined_deg 1.597 r_symmetry_vdw_refined 0.412 r_symmetry_hbond_refined 0.317 r_nbd_refined 0.261 r_xyhbond_nbd_refined 0.253 r_chiral_restr 0.111 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other 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 1048 Nucleic Acid Atoms Solvent Atoms 131 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling CNS phasing