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Periplasmic portion of the Helicobacter pylori chemoreceptor TlpB with urea bound
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 0.1 M PIPES pH 6.5, 22% PEG 3350, 0.2 M ammonium sulfate, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.72 66.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.608 α = 90 b = 81.881 β = 90 c = 94.534 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 315r Rh/Pt coated 2008-07-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 0.977 ALS 5.0.3
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 1.38 50 99.4 0.071 13.3 8.6 127039 126318 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.38 1.4 98.3 0.49 6.6 6208
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SIRAS THROUGHOUT 1.38 47.27 126197 126197 6320 99.41 0.1245 0.1245 0.1233 0.1464 0.1528 RANDOM 18.2775
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 -0.06 0.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.718 r_sphericity_free 19.163 r_dihedral_angle_3_deg 9.654 r_sphericity_bonded 8.378 r_scangle_it 7.89 r_dihedral_angle_4_deg 6.576 r_scbond_it 5.962 r_dihedral_angle_1_deg 4.605 r_mcangle_it 3.783 r_rigid_bond_restr 3.062
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.718 r_sphericity_free 19.163 r_dihedral_angle_3_deg 9.654 r_sphericity_bonded 8.378 r_scangle_it 7.89 r_dihedral_angle_4_deg 6.576 r_scbond_it 5.962 r_dihedral_angle_1_deg 4.605 r_mcangle_it 3.783 r_rigid_bond_restr 3.062 r_mcbond_it 2.755 r_mcbond_other 1.515 r_angle_refined_deg 1.484 r_angle_other_deg 0.909 r_chiral_restr 0.101 r_bond_refined_d 0.017 r_gen_planes_refined 0.015 r_gen_planes_other 0.003 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2550 Nucleic Acid Atoms Solvent Atoms 575 Heterogen Atoms 84
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction SHELXS phasing