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Cyrstal Structure of threonine-sensitive aspartokinase from Methanococcus jannaschii with MgAMP-PNP and L-aspartate
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 14% PEG4000, 100mM Tris, 800mM Ammonium Formate, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.47 50.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.408 α = 90 b = 104.478 β = 90 c = 192.045 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 2006-10-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.033 APS 23-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 50 78 0.058 18.5 3.5 86820 2.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.38 0.305 2.9 2.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 2.3 50 86820 82404 4369 95.61 0.19638 0.19375 0.186 0.24613 0.2341 RANDOM 28.128
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] -2.44 1.1 1.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.527 r_dihedral_angle_4_deg 20.403 r_dihedral_angle_3_deg 18.451 r_dihedral_angle_1_deg 5.812 r_scangle_it 2.103 r_angle_refined_deg 1.334 r_scbond_it 1.288 r_mcangle_it 0.759 r_mcbond_it 0.463 r_nbtor_refined 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.527 r_dihedral_angle_4_deg 20.403 r_dihedral_angle_3_deg 18.451 r_dihedral_angle_1_deg 5.812 r_scangle_it 2.103 r_angle_refined_deg 1.334 r_scbond_it 1.288 r_mcangle_it 0.759 r_mcbond_it 0.463 r_nbtor_refined 0.299 r_symmetry_vdw_refined 0.215 r_nbd_refined 0.209 r_symmetry_hbond_refined 0.17 r_xyhbond_nbd_refined 0.152 r_chiral_restr 0.095 r_metal_ion_refined 0.036 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14215 Nucleic Acid Atoms Solvent Atoms 621 Heterogen Atoms 182
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection DENZO data reduction SCALEPACK data scaling HKL-2000 data scaling REFMAC phasing