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Structure of the NheA component of the Nhe toxin from Bacillus cereus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 290 PEG 3350 (22% w/v), 0.2 M ammonium sulphate, 0.1 M bis-Tris, pH 7.0, vapor diffusion, sitting drop, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.22 44.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 309.008 α = 90 b = 58.242 β = 110.61 c = 172.999 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 2010-04-26 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD ADSC 2010-05-29 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 Diamond I03 2 SYNCHROTRON DIAMOND BEAMLINE I02 0.9794, 0.9797, 0.9784 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.05 161.92 98.9 179016 179016
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1,2 2.05 2.16 99.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 MAD THROUGHOUT 2.05 49.9 179016 170041 8966 98.41 0.21428 0.21178 0.2139 0.26164 0.2672 RANDOM 31.651
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] -4.04 -1.82 6.26 -1.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.056 r_dihedral_angle_4_deg 20.383 r_dihedral_angle_3_deg 16.554 r_scangle_it 12.545 r_scbond_it 9.517 r_dihedral_angle_1_deg 6.197 r_mcangle_it 5.639 r_mcbond_it 4.387 r_angle_refined_deg 0.876 r_angle_other_deg 0.553
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.056 r_dihedral_angle_4_deg 20.383 r_dihedral_angle_3_deg 16.554 r_scangle_it 12.545 r_scbond_it 9.517 r_dihedral_angle_1_deg 6.197 r_mcangle_it 5.639 r_mcbond_it 4.387 r_angle_refined_deg 0.876 r_angle_other_deg 0.553 r_chiral_restr 0.057 r_gen_planes_refined 0.014 r_bond_refined_d 0.006 r_gen_planes_other 0.001 r_bond_other_d 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_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 21083 Nucleic Acid Atoms Solvent Atoms 1507 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction ADSC data collection xia2 data reduction SCALEPACK data scaling SHELXS phasing