☰ Navigation Tabs
Cholera Toxin B-Pentamer Complexed With Nitrophenyl Galactoside 5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3CHB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 42% PEG 350, 50 mM NaCl, 100 mM Tris-HCl pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.81 31.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.754 α = 90 b = 65.998 β = 105.44 c = 77.362 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 2002-03-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 0.9800 ALS 8.2.2
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 1.46 99 98.5 0.048 19.74 3.18 85036 85036 13.821
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) 1.46 1.51 93.2 0.115 8.601 2.46 8013
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 3CHB 1.46 19.69 85036 80755 4274 98.91 0.1174 0.1174 0.11515 0.1392 0.15925 0.1754 RANDOM 11.474
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] -0.02 0.02 -0.01 0.05
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 21.284 r_dihedral_angle_1_deg 6.914 r_scangle_it 6.726 r_sphericity_bonded 6.274 r_scbond_it 4.971 r_mcangle_it 3.207 r_rigid_bond_restr 2.462 r_mcbond_it 2.299 r_angle_refined_deg 1.485 r_angle_other_deg 1.111
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 21.284 r_dihedral_angle_1_deg 6.914 r_scangle_it 6.726 r_sphericity_bonded 6.274 r_scbond_it 4.971 r_mcangle_it 3.207 r_rigid_bond_restr 2.462 r_mcbond_it 2.299 r_angle_refined_deg 1.485 r_angle_other_deg 1.111 r_nbd_other 0.28 r_symmetry_vdw_other 0.262 r_nbd_refined 0.228 r_symmetry_vdw_refined 0.19 r_symmetry_hbond_refined 0.19 r_xyhbond_nbd_refined 0.174 r_nbtor_other 0.099 r_chiral_restr 0.095 r_gen_planes_other 0.018 r_bond_refined_d 0.011 r_gen_planes_refined 0.011 r_bond_other_d 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4095 Nucleic Acid Atoms Solvent Atoms 650 Heterogen Atoms 185
Software Software Software Name Purpose REFMAC refinement TRUNCATE data reduction XTALVIEW refinement HKL-2000 data collection HKL-2000 data reduction CCP4 data scaling