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1.8 Angstrom Crystal Structure of the N-terminal Domain of Protein with Unknown Function from Vibrio cholerae.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 295 Protein: 7.0 mg/ml, 0.3M Sodium chloride, 0.01M HEPES (pH 7.5), + Thermolysin;
Screen: 0.2M Lithium sulfate, Bis-Tris 0.1M (pH 5.5), 25% (w/v) PEG 3350;
Cryo: 5% Glycerol in screen solution, then Paraton, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.01 38.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.065 α = 90 b = 48.576 β = 96.72 c = 49.399 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 MARMOSAIC 300 mm CCD Beryllium lenses 2014-10-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97856 APS 21-ID-G
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.8 30 100 0.07 0.07 40 7.5 21028 21028 -3 27.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.83 100 0.577 0.577 3.6 7.5 1050
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 (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 SAD THROUGHOUT 1.8 30 19835 19835 1068 99.92 0.16238 0.16238 0.1606 0.1743 0.19573 0.2096 RANDOM 33.494
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] 0.28 0.04 0.07 -0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.629 r_dihedral_angle_3_deg 11.509 r_long_range_B_refined 8.929 r_long_range_B_other 8.603 r_dihedral_angle_4_deg 7.879 r_scangle_other 4.013 r_mcangle_it 2.97 r_mcangle_other 2.97 r_dihedral_angle_1_deg 2.889 r_scbond_it 2.827
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.629 r_dihedral_angle_3_deg 11.509 r_long_range_B_refined 8.929 r_long_range_B_other 8.603 r_dihedral_angle_4_deg 7.879 r_scangle_other 4.013 r_mcangle_it 2.97 r_mcangle_other 2.97 r_dihedral_angle_1_deg 2.889 r_scbond_it 2.827 r_scbond_other 2.523 r_mcbond_it 1.905 r_mcbond_other 1.894 r_angle_refined_deg 1.406 r_angle_other_deg 0.716 r_chiral_restr 0.09 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1876 Nucleic Acid Atoms Solvent Atoms 231 Heterogen Atoms 35
Software Software Software Name Purpose Blu-Ice data collection PHENIX model building REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHENIX phasing