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Adenosine triphosphate phosphoribosyltransferase from Campylobacter jejuni in complex with the allosteric inhibitor histidine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1H3D
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293.15 Potassium Thiocyanate, BTP, PEG3350, histidine
Crystal Properties Matthews coefficient Solvent content 2.48 50.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.137 α = 90 b = 123.216 β = 110.66 c = 95.701 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 80 CCD ADSC QUANTUM 315r 2012-10-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.959 Australian Synchrotron MX2
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 2.24 48.04 99 0.093 2 5 94235
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 2.24 2.28 89.7 0.795 2 4.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) 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 1H3D 2.24 48.04 89475 4730 98.92 0.21035 0.20883 0.23907 0.2274 RANDOM 48.288
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] -1.28 1.81 -1.67 1.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.883 r_dihedral_angle_4_deg 19.387 r_dihedral_angle_3_deg 16.983 r_long_range_B_refined 9.361 r_long_range_B_other 9.36 r_scangle_other 7.438 r_dihedral_angle_1_deg 5.858 r_mcangle_it 5.063 r_mcangle_other 5.062 r_scbond_it 4.825
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.883 r_dihedral_angle_4_deg 19.387 r_dihedral_angle_3_deg 16.983 r_long_range_B_refined 9.361 r_long_range_B_other 9.36 r_scangle_other 7.438 r_dihedral_angle_1_deg 5.858 r_mcangle_it 5.063 r_mcangle_other 5.062 r_scbond_it 4.825 r_scbond_other 4.825 r_mcbond_it 3.494 r_mcbond_other 3.494 r_angle_refined_deg 1.477 r_angle_other_deg 1.264 r_chiral_restr 0.075 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d 0.006 r_gen_planes_other 0.005 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13195 Nucleic Acid Atoms Solvent Atoms 128 Heterogen Atoms 119
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing MOLREP phasing