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Crystal structure of Pyrococcus furiosus phosphoglucose isomerase free enzyme
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1X82
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 290 1.6M tri-sodium citrate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.1 41.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.236 α = 90 b = 73.865 β = 90 c = 77.666 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 IMAGE PLATE MARRESEARCH YALE MIRRORS 2003-08-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.54
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 2.8 53.45 99 0.141 4.9 4.1 10198 10096
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 2.8 2.95 4.1 0.439 1.7 4.1 1359
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 (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 THROUGHOUT 1X82 2.8 53.45 9481 9481 481 98.42 0.2177 0.2177 0.21484 0.2158 0.27586 0.2454 RANDOM 24.614
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] 3.74 -4.43 0.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.785 r_scangle_it 2.901 r_angle_refined_deg 1.763 r_scbond_it 1.66 r_mcangle_it 1.479 r_angle_other_deg 0.906 r_mcbond_it 0.795 r_symmetry_vdw_other 0.284 r_symmetry_vdw_refined 0.25 r_nbd_other 0.231
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.785 r_scangle_it 2.901 r_angle_refined_deg 1.763 r_scbond_it 1.66 r_mcangle_it 1.479 r_angle_other_deg 0.906 r_mcbond_it 0.795 r_symmetry_vdw_other 0.284 r_symmetry_vdw_refined 0.25 r_nbd_other 0.231 r_nbd_refined 0.201 r_xyhbond_nbd_refined 0.185 r_chiral_restr 0.105 r_nbtor_other 0.092 r_symmetry_hbond_refined 0.039 r_bond_refined_d 0.02 r_gen_planes_refined 0.005 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3038 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing