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Human muscle fructose-1,6-bisphosphatase E69Q mutant in complex with AMP and alpha fructose-6-phosphate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FJ6 PDB ENTRY 1fj6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 292 1.6M ammonium sulfate, 0.1M MES pH 6.5, 10% 1,4-dioxane, crystal soaked with 5mM D-fructose-6-phosphate dipotassium salt, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 3.13 60.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 218.14 α = 90 b = 234.54 β = 90 c = 71.75 γ = 90
Symmetry Space Group C 2 2 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 MARMOSAIC 225 mm CCD two mirrors and double crystal monochromator between them 2008-08-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
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 1.97 50 91.5 0.07 18 4.3 130416 119283 -2 23.1
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 1.97 2.04 48.8 0.376 2.1 2.2 6314
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 Rfree PDB ENTRY 1fj6 1.97 50 -2 130416 117923 1334 91.75 0.16706 0.16706 0.16672 0.1932 0.19711 0.2215 RANDOM 33.016
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] -2.92 -0.11 3.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.487 r_dihedral_angle_3_deg 14.961 r_dihedral_angle_4_deg 12.47 r_dihedral_angle_1_deg 6.369 r_scangle_it 3.796 r_scbond_it 2.451 r_angle_refined_deg 1.739 r_mcangle_it 1.483 r_angle_other_deg 1.018 r_mcbond_it 0.854
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.487 r_dihedral_angle_3_deg 14.961 r_dihedral_angle_4_deg 12.47 r_dihedral_angle_1_deg 6.369 r_scangle_it 3.796 r_scbond_it 2.451 r_angle_refined_deg 1.739 r_mcangle_it 1.483 r_angle_other_deg 1.018 r_mcbond_it 0.854 r_mcbond_other 0.245 r_chiral_restr 0.103 r_bond_refined_d 0.02 r_gen_planes_refined 0.007 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 9776 Nucleic Acid Atoms Solvent Atoms 702 Heterogen Atoms 237
Software Software Software Name Purpose MAR345 data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling