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Crystal structure of fructose bisphosphate aldolase from Encephalitozoon Cuniculi, bound to glyceraldehyde 3-phosphate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3MBF pdb entry 3MBF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 290 10% PEG6000, 0.1 M HEPES, protein at ~22 mg/ml,
glyceraldehyde 3-phosphate at 10 mM., pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 3.47 64.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 122.54 α = 90 b = 138.09 β = 90 c = 62.8 γ = 90
Symmetry Space Group C 2 2 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 315 2011-02-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 0.977400 ALS 5.0.1
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 50 99.8 0.052 22.64 6 36410 36353 -3 35.215
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) 2 2.05 100 0.438 4.2 6.1 2650
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 3MBF 2 46.46 36267 1783 99.63 0.164 0.163 0.1703 0.187 0.1962 RANDOM 30.407
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] -1.26 -0.5 1.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.463 r_dihedral_angle_4_deg 17.117 r_dihedral_angle_3_deg 13.279 r_dihedral_angle_1_deg 5.772 r_scangle_it 3.482 r_scbond_it 2.186 r_angle_refined_deg 1.395 r_mcangle_it 1.343 r_angle_other_deg 0.919 r_mcbond_it 0.764
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.463 r_dihedral_angle_4_deg 17.117 r_dihedral_angle_3_deg 13.279 r_dihedral_angle_1_deg 5.772 r_scangle_it 3.482 r_scbond_it 2.186 r_angle_refined_deg 1.395 r_mcangle_it 1.343 r_angle_other_deg 0.919 r_mcbond_it 0.764 r_mcbond_other 0.224 r_chiral_restr 0.087 r_bond_refined_d 0.016 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 2591 Nucleic Acid Atoms Solvent Atoms 221 Heterogen Atoms 9
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection XDS data reduction