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Crystal structure of uncharacterized protein HP0035 from Helicobacter pylori
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 297 30% PEG 4K,0.2M Ammonium Acetate, 0.1M Sodium Citrate pH5.6, VAPOR DIFFUSION, HANGING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 2.19 43.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.129 α = 90 b = 99.566 β = 90 c = 45.196 γ = 90
Symmetry Space Group C 2 2 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 315 2008-08-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 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 1.78 50 99.6 0.074 50.3 7.1 19258 19185 -3 29.06
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 1.78 1.81 100 0.68 6.1 940
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 1.78 50 19143 19143 982 99.44 0.1819 0.1819 0.17989 0.186 0.2198 0.2244 RANDOM 28.204
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] 0.01 -0.41 0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.573 r_dihedral_angle_4_deg 14.438 r_dihedral_angle_3_deg 13.194 r_dihedral_angle_1_deg 4.523 r_scangle_it 4.409 r_scbond_it 2.779 r_mcangle_it 1.585 r_angle_refined_deg 1.373 r_mcbond_it 0.879 r_chiral_restr 0.096
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.573 r_dihedral_angle_4_deg 14.438 r_dihedral_angle_3_deg 13.194 r_dihedral_angle_1_deg 4.523 r_scangle_it 4.409 r_scbond_it 2.779 r_mcangle_it 1.585 r_angle_refined_deg 1.373 r_mcbond_it 0.879 r_chiral_restr 0.096 r_bond_refined_d 0.015 r_gen_planes_refined 0.005 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1330 Nucleic Acid Atoms Solvent Atoms 142 Heterogen Atoms 16
Software Software Software Name Purpose SBC-Collect data collection HKL-3000 phasing MLPHARE phasing DM model building SHELXD phasing RESOLVE model building Coot model building REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling DM phasing RESOLVE phasing