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Crystal structure of paia n-acetyltransferase from thermoplasma acidophilum in complex with coenzyme a
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3F0A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 294 12% GLYCEROL, 1.5 M AMMONIUM SULFATE, 0.1 M TRIS, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.86 57.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.224 α = 90 b = 69.224 β = 90 c = 90.628 γ = 90
Symmetry Space Group P 43 21 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 MIRROR 2009-11-25 M MOLECULAR REPLACEMENT
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97872 APS 21-ID-G
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.3 55.01 100 0.151 0.151 33.47 13.9 10296 10296 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.34 98.4 0.832 0.832 4 12.7
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3F0A 2.3 55.01 10245 10245 492 99.72 0.187 0.184 0.1902 0.238 0.2233 RANDOM 21.34
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] -0.37 -0.37 0.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.452 r_dihedral_angle_4_deg 17.544 r_dihedral_angle_3_deg 15.081 r_dihedral_angle_1_deg 5.899 r_scangle_it 4.018 r_scbond_it 2.524 r_angle_refined_deg 1.601 r_mcangle_it 1.58 r_angle_other_deg 0.88 r_mcbond_it 0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.452 r_dihedral_angle_4_deg 17.544 r_dihedral_angle_3_deg 15.081 r_dihedral_angle_1_deg 5.899 r_scangle_it 4.018 r_scbond_it 2.524 r_angle_refined_deg 1.601 r_mcangle_it 1.58 r_angle_other_deg 0.88 r_mcbond_it 0.81 r_mcbond_other 0.173 r_chiral_restr 0.087 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1326 Nucleic Acid Atoms Solvent Atoms 48 Heterogen Atoms 74
Software Software Software Name Purpose Blu-Ice data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling