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Crystal structure of Thermococcus litoralis phosphogrucose isomerase soaked with FeSO4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1J3P
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4 278 PEG 8000, potassium phosphate, ferrous sulfate, pH 4.0, VAPOR DIFFUSION, SITTING DROP, temperature 278K
Crystal Properties Matthews coefficient Solvent content 2.33 46.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.52 α = 90 b = 81.07 β = 90 c = 126.939 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 CCD ADSC QUANTUM 4 2002-11-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-6A 0.978 Photon Factory BL-6A
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 1.85 29.5 96.4 0.041 10.6 3.64 35186 35186 19.9
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) 1.85 1.95 89.8 0.296 2.6 3.43 4682
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 FOURIER SYNTHESIS THROUGHOUT 1J3P 1.85 29.27 36639 35137 1754 95.9 0.24 0.238 0.238 0.2392 0.278 0.2398 RANDOM 32
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] 1.92 -3.58 1.66
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25.1 c_scangle_it 5.62 c_scbond_it 4.3 c_mcangle_it 3.57 c_mcbond_it 2.84 c_angle_deg 1.4 c_improper_angle_d 0.76 c_bond_d 0.007 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25.1 c_scangle_it 5.62 c_scbond_it 4.3 c_mcangle_it 3.57 c_mcbond_it 2.84 c_angle_deg 1.4 c_improper_angle_d 0.76 c_bond_d 0.007 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2969 Nucleic Acid Atoms Solvent Atoms 236 Heterogen Atoms 2
Software Software Software Name Purpose CNS refinement MOSFLM data reduction CCP4 data scaling CNS phasing