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Cholera Toxin B-Pentamer Complexed With Bivalent Nitrophenol-Galactoside Ligand BV2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 38% PEG 300, 50 mM NaCl, 100 mM Tris-HCl, and 2.3mM BV2, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.17 43.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.983 α = 90 b = 66.072 β = 105.84 c = 77.818 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 100 CCD ADSC QUANTUM 315 2003-05-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 1.0000 ALS 8.2.2
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 1.44 50 92.4 0.083 14.4 3.6 86307 81971 -3 16.7
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) 1.44 1.5 73.3 0.567 1.9 3.1 6452
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 (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 THROUGHOUT 1.44 37.53 77876 4090 92.01 0.13394 0.13394 0.13137 0.1696 0.18357 0.2127 RANDOM 12.551
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 -0.02 -0.04 0.05
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 19.22 r_scangle_it 7.499 r_sphericity_bonded 7.2 r_dihedral_angle_1_deg 6.976 r_scbond_it 5.667 r_mcangle_it 4.444 r_mcbond_it 3.455 r_rigid_bond_restr 2.48 r_angle_refined_deg 1.464 r_angle_other_deg 0.88
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 19.22 r_scangle_it 7.499 r_sphericity_bonded 7.2 r_dihedral_angle_1_deg 6.976 r_scbond_it 5.667 r_mcangle_it 4.444 r_mcbond_it 3.455 r_rigid_bond_restr 2.48 r_angle_refined_deg 1.464 r_angle_other_deg 0.88 r_nbd_other 0.335 r_symmetry_vdw_refined 0.309 r_symmetry_vdw_other 0.29 r_nbd_refined 0.225 r_xyhbond_nbd_refined 0.164 r_symmetry_hbond_refined 0.107 r_chiral_restr 0.092 r_nbtor_other 0.085 r_bond_refined_d 0.013 r_gen_planes_other 0.01 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_mcbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4079 Nucleic Acid Atoms Solvent Atoms 491 Heterogen Atoms 163
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling XTALVIEW refinement