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Human liver fructose-1,6-bisphosphatase(d-fructose-1,6-bisphosphate, 1-phosphohydrolase) (e.c.3.1.3.11) complexed with the allosteric inhibitor 3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VT5 PDB ENTRY 2VT5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 300 0.1 M ammonium acetate and 12% polyethylenglycol 3350 in 0.1 M HEPES, pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.66 53.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.974 α = 90 b = 286.305 β = 97.79 c = 83.692 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray CCD MAR CCD 165 mm 2007-03-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.0 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.4 30.5 96.5 119425 115242
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 2VT5 2.4 29.74 115242 109458 5784 96.52 0.20817 0.20664 0.2103 0.23647 0.2387 RANDOM 35.597
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] -0.33 0.48 -0.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.169 r_dihedral_angle_3_deg 16.859 r_dihedral_angle_4_deg 14.991 r_dihedral_angle_1_deg 5.703 r_mcangle_it 3.6 r_scbond_it 3.041 r_mcbond_it 2.304 r_mcbond_other 2.303 r_angle_other_deg 1.53 r_angle_refined_deg 1.521
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.169 r_dihedral_angle_3_deg 16.859 r_dihedral_angle_4_deg 14.991 r_dihedral_angle_1_deg 5.703 r_mcangle_it 3.6 r_scbond_it 3.041 r_mcbond_it 2.304 r_mcbond_other 2.303 r_angle_other_deg 1.53 r_angle_refined_deg 1.521 r_symmetry_vdw_refined 0.205 r_symmetry_hbond_refined 0.195 r_xyhbond_nbd_refined 0.172 r_chiral_restr 0.078 r_bond_refined_d 0.011 r_bond_other_d 0.008 r_gen_planes_refined 0.008 r_gen_planes_other 0.007 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 19457 Nucleic Acid Atoms Solvent Atoms 661 Heterogen Atoms 232
Software Software Software Name Purpose REFMAC refinement