☰ Navigation Tabs
2.05 Angstrom Resolution Crystal Structure of D-ribulose-phosphate 3-epimerase from Francisella tularensis.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TQJ PDB entry 1TQJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4 295 protein solution: 7.5 mg/mL, 0.5M Sodium chloride, TRIS-HCl pH 8.3;
Screen solution: JCSG+, condition B1, 0.8M Ammonium sulfate, 0.1M Citric acid pH 4.0;
Cryo solution: 1.8M Ammonium sulfate, 25% (w/v) Sucrose., VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 4.37 71.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 224.08 α = 90 b = 224.08 β = 90 c = 224.08 γ = 90
Symmetry Space Group F 41 3 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 Diamond 2009-08-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
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 2.05 30 100 0.096 28.2 14.4 30690 30690 -3 29.9
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 2.05 2.09 100 0.472 6.3 14.6 1518
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 PDB entry 1TQJ 2.05 29.94 29116 29116 1548 99.99 0.15925 0.15925 0.15833 0.1862 0.17703 0.2002 RANDOM 13.424
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.981 r_dihedral_angle_4_deg 20.55 r_dihedral_angle_3_deg 9.932 r_scangle_it 5.058 r_scbond_it 3.265 r_dihedral_angle_1_deg 3.121 r_mcangle_it 1.773 r_angle_refined_deg 1.396 r_mcbond_it 1.004 r_angle_other_deg 0.866
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.981 r_dihedral_angle_4_deg 20.55 r_dihedral_angle_3_deg 9.932 r_scangle_it 5.058 r_scbond_it 3.265 r_dihedral_angle_1_deg 3.121 r_mcangle_it 1.773 r_angle_refined_deg 1.396 r_mcbond_it 1.004 r_angle_other_deg 0.866 r_mcbond_other 0.339 r_chiral_restr 0.092 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1663 Nucleic Acid Atoms Solvent Atoms 165 Heterogen Atoms 12
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling