☰ Navigation Tabs
Crystal structure of Entamoeba histolytica serine acetyltransferase 1 in complex with L-serine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3P47
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 299 Ammonium Sulfate, NaCl, Tris, Glycerol, L-serine, pH 8.0, vapor diffusion, hanging drop, temperature 299K
Crystal Properties Matthews coefficient Solvent content 2.08 40.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 110.19 α = 90 b = 110.19 β = 90 c = 63.327 γ = 120
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 MARMOSAIC 225 mm CCD 2010-10-28 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.9537 ESRF BM14
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 1.59 30 0.078 6.67 38526 38478 27.91
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3P47 1.59 27.55 38478 1910 99.84 0.1618 0.1606 0.1585 0.1826 0.1803 RANDOM 23.9204
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] -16.27 -16.27 32.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.115 r_dihedral_angle_4_deg 14.75 r_dihedral_angle_3_deg 14.233 r_dihedral_angle_1_deg 5.891 r_scangle_it 2.189 r_scbond_it 1.451 r_angle_refined_deg 1.135 r_mcangle_it 0.856 r_mcbond_it 0.447 r_chiral_restr 0.075
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.115 r_dihedral_angle_4_deg 14.75 r_dihedral_angle_3_deg 14.233 r_dihedral_angle_1_deg 5.891 r_scangle_it 2.189 r_scbond_it 1.451 r_angle_refined_deg 1.135 r_mcangle_it 0.856 r_mcbond_it 0.447 r_chiral_restr 0.075 r_bond_refined_d 0.008 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2119 Nucleic Acid Atoms Solvent Atoms 106 Heterogen Atoms 12
Software Software Software Name Purpose MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection DENZO data reduction SCALEPACK data scaling AUTOMAR data reduction