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CRYSTAL STRUCTURE OF A RIBOSOME INACTIVATING PROTEIN IN ITS NATURALLY INHIBITED FORM
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PC8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4 298 NaCl,Ammonium Sulphate, Dioxane, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 4.7 73.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.422 α = 90 b = 109.422 β = 90 c = 309.798 γ = 120
Symmetry Space Group P 65 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 273 IMAGE PLATE MARRESEARCH mirrors 2001-04-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.8453 EMBL/DESY, HAMBURG X11
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 2.8 20 95.8 0.057 33.5 42.8 26570 91
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.8 2.85 0.433 2 1333
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MIR THROUGHOUT 1pc8 2.8 20 26570 1301 100 0.23998 0.23433 0.28856 RANDOM 58.406
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] 5.43 2.72 5.43 -8.15
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 10.549 r_dihedral_angle_1_deg 10.107 r_scbond_it 7.449 r_mcangle_it 3.951 r_mcbond_it 2.272 r_angle_refined_deg 1.716 r_symmetry_hbond_refined 0.558 r_nbd_refined 0.32 r_chiral_restr 0.3 r_xyhbond_nbd_refined 0.269
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 10.549 r_dihedral_angle_1_deg 10.107 r_scbond_it 7.449 r_mcangle_it 3.951 r_mcbond_it 2.272 r_angle_refined_deg 1.716 r_symmetry_hbond_refined 0.558 r_nbd_refined 0.32 r_chiral_restr 0.3 r_xyhbond_nbd_refined 0.269 r_symmetry_vdw_refined 0.265 r_gen_planes_refined 0.023 r_bond_refined_d 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3813 Nucleic Acid Atoms Solvent Atoms 106 Heterogen Atoms 182
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing