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CRYSTAL STRUCTURE OF RTX DOMAIN BLOCK V OF ADENYLATE CYCLASE TOXIN FROM BORDETELLA PERTUSSIS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SRP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 291.15 Buffer composition: 5 mM Tris-HCl pH=7.4, 150 mM NaCl, 10 mM CaCl2
Precipitant composition: 0.2 M Magnesium sulfate, 20% v/v PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.4 48.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.824 α = 90 b = 62.983 β = 90 c = 77.627 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 90 CCD MARMOSAIC 225 mm CCD 2 MIRRORS 2012-07-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.918 BESSY 14.1
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 1.23 50 93.6 0.043 19.78 4.48 42131 -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 1.23 1.3 72.3
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1SRP 1.25 29.24 39003 2083 95.71 0.14009 0.13868 0.1405 0.16644 0.1691 RANDOM 17.732
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] 0.17 0.22 -0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.954 r_sphericity_free 37.188 r_sphericity_bonded 19.904 r_dihedral_angle_4_deg 18.681 r_dihedral_angle_3_deg 13.864 r_dihedral_angle_1_deg 6.276 r_rigid_bond_restr 5.066 r_long_range_B_refined 4.115 r_scbond_it 2.906 r_mcangle_it 2.219
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.954 r_sphericity_free 37.188 r_sphericity_bonded 19.904 r_dihedral_angle_4_deg 18.681 r_dihedral_angle_3_deg 13.864 r_dihedral_angle_1_deg 6.276 r_rigid_bond_restr 5.066 r_long_range_B_refined 4.115 r_scbond_it 2.906 r_mcangle_it 2.219 r_angle_refined_deg 2.203 r_mcbond_it 1.688 r_chiral_restr 0.163 r_bond_refined_d 0.048 r_gen_planes_refined 0.013 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1107 Nucleic Acid Atoms Solvent Atoms 124 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction XDS data scaling PHASER phasing