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Catalytic fragment of Cholix toxin from Vibrio Cholerae in complex with the PJ34 inhibitor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 298 15% PEG-8000, 0.02 M KH2PO4, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.16 42.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.085 α = 90 b = 64.756 β = 90 c = 77.995 γ = 90
Symmetry Space Group P 21 21 21
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 Rosenbaum-Rock vertical focusing mirror, with Pt, glass, Pd lanes 2007-03-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 1.033 APS 19-ID
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 1.25 30 97.9 0.055 23.5 10.7 56896 55688 -3 16.964
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) 1.25 1.29 83.4 0.337 3.4 3.9 4667
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.25 25.19 55619 2821 97.71 0.151 0.15 0.1522 0.18 RANDOM 17.465
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] 0.09 -0.04 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.431 r_dihedral_angle_4_deg 15.833 r_dihedral_angle_3_deg 13.242 r_sphericity_free 10.529 r_dihedral_angle_1_deg 5.99 r_sphericity_bonded 5.868 r_scangle_it 4.939 r_scbond_it 4.014 r_mcangle_it 3.001 r_mcbond_it 2.513
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.431 r_dihedral_angle_4_deg 15.833 r_dihedral_angle_3_deg 13.242 r_sphericity_free 10.529 r_dihedral_angle_1_deg 5.99 r_sphericity_bonded 5.868 r_scangle_it 4.939 r_scbond_it 4.014 r_mcangle_it 3.001 r_mcbond_it 2.513 r_rigid_bond_restr 2.493 r_angle_refined_deg 1.809 r_mcbond_other 1.105 r_angle_other_deg 0.928 r_symmetry_vdw_other 0.265 r_nbd_refined 0.222 r_symmetry_hbond_refined 0.206 r_nbd_other 0.191 r_nbtor_refined 0.191 r_xyhbond_nbd_refined 0.149 r_chiral_restr 0.114 r_symmetry_vdw_refined 0.097 r_nbtor_other 0.092 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1578 Nucleic Acid Atoms Solvent Atoms 356 Heterogen Atoms 44
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction HKL-3000 data collection HKL-3000 data reduction