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Crystal structure of protein HP0184 from Helicobacter pylori
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.4 297 Tris, CL, PEG3350, pH 7.4, VAPOR DIFFUSION, SITTING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 2.4 48.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.093 α = 90 b = 77.093 β = 90 c = 118.187 γ = 120
Symmetry Space Group P 61 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 100 CCD ADSC QUANTUM 4 2005-04-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97929 APS 19-ID
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 2 50 99.7 0.107 63.1 19.5 14694 14653 -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 2 2.07 97.3 0.354 4.95 7.6 1385
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 SAD THROUGHOUT 2 50 14606 14606 734 99.73 0.20069 0.20069 0.19789 0.25567 0.2966 RANDOM 43.648
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] -0.25 -0.12 -0.25 0.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.181 r_dihedral_angle_3_deg 18.721 r_dihedral_angle_4_deg 17.594 r_dihedral_angle_1_deg 7.552 r_scangle_it 3.163 r_mcangle_it 2.58 r_scbond_it 2.16 r_angle_refined_deg 1.906 r_mcbond_it 1.773 r_symmetry_vdw_refined 0.328
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.181 r_dihedral_angle_3_deg 18.721 r_dihedral_angle_4_deg 17.594 r_dihedral_angle_1_deg 7.552 r_scangle_it 3.163 r_mcangle_it 2.58 r_scbond_it 2.16 r_angle_refined_deg 1.906 r_mcbond_it 1.773 r_symmetry_vdw_refined 0.328 r_nbtor_refined 0.31 r_symmetry_hbond_refined 0.217 r_nbd_refined 0.215 r_xyhbond_nbd_refined 0.201 r_chiral_restr 0.133 r_bond_refined_d 0.021 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1461 Nucleic Acid Atoms Solvent Atoms 100 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling HKL-3000 phasing