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Structural and Functional Studies of Helicobacter pylori Wild-Type and Mutated Proteins Phosphopantetheine adenylyltransferase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1H1T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 7 293 2M (NH4)2SO4,0.2M Li2SO4, 0.1M Tris, pH 7, EVAPORATION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.6 52.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.419 α = 90 b = 119.846 β = 90 c = 124.573 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 2010-08-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL13B1 1.0 NSRRC BL13B1
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 1.796 26.03 94.99 107342 101966 1 2
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 1.79 1.85 99.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT 1H1T 1.8 25 107342 101966 5376 98.93 0.243 0.18807 0.18626 0.22198 0.2476 RANDOM 31.759
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] -0.06 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.349 r_dihedral_angle_4_deg 21.204 r_dihedral_angle_3_deg 15.355 r_dihedral_angle_1_deg 5.539 r_scangle_it 4.842 r_scbond_it 2.971 r_angle_refined_deg 1.795 r_mcangle_it 1.784 r_mcbond_it 0.937 r_chiral_restr 0.121
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.349 r_dihedral_angle_4_deg 21.204 r_dihedral_angle_3_deg 15.355 r_dihedral_angle_1_deg 5.539 r_scangle_it 4.842 r_scbond_it 2.971 r_angle_refined_deg 1.795 r_mcangle_it 1.784 r_mcbond_it 0.937 r_chiral_restr 0.121 r_bond_refined_d 0.016 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7427 Nucleic Acid Atoms Solvent Atoms 605 Heterogen Atoms 323
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement DENZO data reduction HKL-2000 data scaling