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Stabilized Ricin Immunogen 1-33/44-198
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1IFS PDB ENTRY 1IFS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.4 290 Protein Buffer: 50mM MES pH 6.4, 200mM NaCl, 2mM BME, Crystallization Solution: 0.17M Ammonium Sulfate, 25.5% w/v PEG 4000, 15% v/v Glycerol , VAPOR DIFFUSION, HANGING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.12 41.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.744 α = 90 b = 72.767 β = 90 c = 96.382 γ = 90
Symmetry Space Group I 2 2 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 BRUKER SMART 6000 2010-02-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.54
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 2.08 58.07 96.6 0.054 20.18 9.61 11284 10903 3 3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.08 2.17 77.1 3.88 3.01
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1IFS 2.08 58.03 11284 10377 520 96.59 0.21108 0.20991 0.23603 0.2024 RANDOM 22.692
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] -0.97 -0.65 1.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.05 r_dihedral_angle_4_deg 20.198 r_dihedral_angle_3_deg 14.752 r_scangle_it 5.365 r_scbond_it 3.253 r_mcangle_it 2.277 r_mcbond_it 1.257 r_angle_refined_deg 1.111 r_dihedral_angle_1_deg 0.972 r_nbtor_refined 0.325
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.05 r_dihedral_angle_4_deg 20.198 r_dihedral_angle_3_deg 14.752 r_scangle_it 5.365 r_scbond_it 3.253 r_mcangle_it 2.277 r_mcbond_it 1.257 r_angle_refined_deg 1.111 r_dihedral_angle_1_deg 0.972 r_nbtor_refined 0.325 r_symmetry_vdw_refined 0.309 r_nbd_refined 0.267 r_xyhbond_nbd_refined 0.155 r_symmetry_hbond_refined 0.154 r_chiral_restr 0.086 r_gen_planes_refined 0.007 r_bond_refined_d 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other 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 1363 Nucleic Acid Atoms Solvent Atoms 76 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement AMoRE phasing CNS refinement SAINT data reduction SADABS data scaling PROTEUM PLUS data collection