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Human Adenine Phosphoribosyltransferase Complexed with AMP, in Space Group P1 at 1.76 A Resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 291 15.0 % (V/V) glycerol, 25.5 % (w/V) polyethylene glycol 4000, 0.17 mol/L sodium acetate and 0.085 mol/L Tris-HCl pH 8.5 , VAPOR DIFFUSION, HANGING DROP, temperature 291 K, pH 8.50
Crystal Properties Matthews coefficient Solvent content 2.17 42.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.06 α = 75.41 b = 47.47 β = 68.42 c = 47.84 γ = 61.49
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray IMAGE PLATE MARRESEARCH M SINGLE WAVELENGTH 2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418 2 SYNCHROTRON LNLS BEAMLINE D03B-MX1 1.4538 LNLS D03B-MX1
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 1.76 44 31837
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.76 44 30208 1629 95.5 0.16 0.157 0.1694 0.211 RANDOM 17.51
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] -0.48 0.96 -0.34 -0.37 -0.24 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.747 r_dihedral_angle_4_deg 22.271 r_dihedral_angle_3_deg 15.397 r_dihedral_angle_1_deg 6.317 r_scangle_it 4.006 r_scbond_it 2.758 r_angle_refined_deg 1.932 r_mcangle_it 1.607 r_mcbond_it 1.467 r_angle_other_deg 0.962
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.747 r_dihedral_angle_4_deg 22.271 r_dihedral_angle_3_deg 15.397 r_dihedral_angle_1_deg 6.317 r_scangle_it 4.006 r_scbond_it 2.758 r_angle_refined_deg 1.932 r_mcangle_it 1.607 r_mcbond_it 1.467 r_angle_other_deg 0.962 r_mcbond_other 0.3 r_symmetry_vdw_other 0.295 r_symmetry_vdw_refined 0.284 r_xyhbond_nbd_refined 0.23 r_symmetry_hbond_refined 0.219 r_nbd_refined 0.214 r_nbd_other 0.203 r_nbtor_refined 0.18 r_chiral_restr 0.133 r_nbtor_other 0.088 r_bond_refined_d 0.02 r_bond_other_d 0.007 r_gen_planes_refined 0.007 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2717 Nucleic Acid Atoms Solvent Atoms 355 Heterogen Atoms 47
Software Software Software Name Purpose REFMAC refinement