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The crystal structure of the P132V mutant of Pyrococcus furiosus phosphoglucose isomerase in complex with manganese and fructose-6- phosphate.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1X7N PDB ENTRY 1X7N
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 290 0.2 M sodium nitrate, 0.1 M Bis Tris Propane PH6.5, 20% PEG4000, VAPOR DIFFUSION, SITTING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.2 44.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.94 α = 87.81 b = 45.01 β = 89.86 c = 48.69 γ = 75.47
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M Diamond I03 2011-11-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.96860 Diamond I24
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 1.79 18.49 95.7 0.086 4.3 1.8 33074 33074
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 1.79 1.84 94 0.349 2.2 1.8 2386
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1X7N 1.79 18.49 33074 31398 1675 100 0.17577 0.17325 0.22008 0.2603 RANDOM 27.347
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] 0.83 1.08 0.42 -0.37 -0.37 -0.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.881 r_dihedral_angle_4_deg 16.549 r_dihedral_angle_3_deg 14.214 r_dihedral_angle_1_deg 6.421 r_scangle_it 4.352 r_scbond_it 2.621 r_mcangle_it 1.851 r_angle_refined_deg 1.265 r_rigid_bond_restr 1.242 r_mcbond_it 0.997
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.881 r_dihedral_angle_4_deg 16.549 r_dihedral_angle_3_deg 14.214 r_dihedral_angle_1_deg 6.421 r_scangle_it 4.352 r_scbond_it 2.621 r_mcangle_it 1.851 r_angle_refined_deg 1.265 r_rigid_bond_restr 1.242 r_mcbond_it 0.997 r_chiral_restr 0.082 r_bond_refined_d 0.009 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3056 Nucleic Acid Atoms Solvent Atoms 218 Heterogen Atoms 34
Software Software Software Name Purpose GDA data collection PHASER phasing REFMAC refinement xia2 data reduction xia2 data scaling