☰ Navigation Tabs
Crystal Structure of Allosteric Inhibition Threonine-sensitive Aspartokinase from Methanococcus jannaschii with L-threonine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3C1M PDB entry 3C1M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 293 0.2M ammonium iodide, 2.2M ammonium sulfate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3 58.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 110.039 α = 90 b = 144.317 β = 90 c = 155.358 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 MARMOSAIC 300 mm CCD 2007-06-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.000 APS 22-ID
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 2.7 50 69.1 0.091 18.1 7.2 56798 2 74.1
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 2.7 2.8 0.236 3.4 2 1419
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 PDB entry 3C1M 2.72 50 56798 56187 2872 84.37 0.239 0.236 0.2259 0.29 0.2786 RANDOM 63.799
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] 3.51 -2.44 -1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.819 r_dihedral_angle_3_deg 18.698 r_dihedral_angle_4_deg 18.142 r_dihedral_angle_1_deg 5.049 r_scangle_it 1.272 r_angle_refined_deg 1.124 r_scbond_it 0.737 r_mcangle_it 0.569 r_mcbond_it 0.323 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.819 r_dihedral_angle_3_deg 18.698 r_dihedral_angle_4_deg 18.142 r_dihedral_angle_1_deg 5.049 r_scangle_it 1.272 r_angle_refined_deg 1.124 r_scbond_it 0.737 r_mcangle_it 0.569 r_mcbond_it 0.323 r_nbtor_refined 0.302 r_symmetry_vdw_refined 0.207 r_nbd_refined 0.206 r_xyhbond_nbd_refined 0.131 r_chiral_restr 0.074 r_symmetry_hbond_refined 0.063 r_bond_refined_d 0.008 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13766 Nucleic Acid Atoms Solvent Atoms 71 Heterogen Atoms 56
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction SERGUI data collection