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Crystal Structure Of Human Il-1beta In Complex With Antibody Binding Fragment Of IgG26
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2I1B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 3.8 293 17% (w/v) PEG 3350, 10% (v/v) glycerol, and 0.1 M citric acid at pH 3.8.
Crystal Properties Matthews coefficient Solvent content 2.54 51.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 156.344 α = 90 b = 112.24 β = 94.847 c = 38.577 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 98 CCD RAYONIX MX300-HS 2015-12-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE TPS 05A 1.0 NSRRC TPS 05A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.65 19.763 100 0.76 20.7 2.7 19167
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.65 2.74 0.76
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 2I1B 2.65 19.7 18103 963 93.696 0.203 0.1998 0.201 0.2535 0.2545 64.403
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] 2.417 0.882 -2.815 0.245
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.821 r_dihedral_angle_3_deg 14.438 r_dihedral_angle_4_deg 13.349 r_dihedral_angle_1_deg 7.079 r_lrange_it 5.701 r_lrange_other 5.594 r_mcangle_it 2.606 r_mcangle_other 2.606 r_scangle_it 1.541 r_scangle_other 1.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.821 r_dihedral_angle_3_deg 14.438 r_dihedral_angle_4_deg 13.349 r_dihedral_angle_1_deg 7.079 r_lrange_it 5.701 r_lrange_other 5.594 r_mcangle_it 2.606 r_mcangle_other 2.606 r_scangle_it 1.541 r_scangle_other 1.54 r_mcbond_it 1.402 r_mcbond_other 1.402 r_angle_refined_deg 1.264 r_angle_other_deg 1.106 r_scbond_it 0.744 r_scbond_other 0.744 r_nbd_other 0.179 r_symmetry_nbd_other 0.171 r_nbd_refined 0.165 r_nbtor_refined 0.156 r_xyhbond_nbd_refined 0.14 r_symmetry_nbd_refined 0.124 r_symmetry_xyhbond_nbd_refined 0.098 r_symmetry_nbtor_other 0.066 r_chiral_restr 0.042 r_bond_refined_d 0.004 r_bond_other_d 0.003 r_gen_planes_refined 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4428 Nucleic Acid Atoms Solvent Atoms 280 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling MOLREP phasing