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Crystal structure of fructose-1,6-bisphosphate aldolase from Babesia bovis at 2.1A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PC4 pdb entry 2PC4 modified with CCP4 program CHAINSAW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.2 290 EBS CRYO SCREEN H12: 50% PEG 200, 100MM PHOSPHATE/CITRATE PH 4.2, 200MM NACL; BABOA.00974.A AT 30MG/ML, PH N/A, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K
Crystal Properties Matthews coefficient Solvent content 2.59 52.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.88 α = 90 b = 114.16 β = 90 c = 174.54 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 315r 2009-10-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 0.975484 ALS 5.0.3
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 2.1 20 99.2 0.071 19.7 8 100767 99984 -3 33.47
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 2.1 2.15 100 0.388 5.1 8.3 7365
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 2PC4 modified with CCP4 program CHAINSAW 2.1 20 100767 99909 4992 99.4 0.162 0.162 0.16 0.166 0.193 0.2 RANDOM 16.18
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] 0.42 1.74 -2.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.232 r_dihedral_angle_4_deg 19.12 r_dihedral_angle_3_deg 13.399 r_dihedral_angle_1_deg 5.696 r_scangle_it 3.781 r_scbond_it 2.288 r_angle_refined_deg 1.425 r_mcangle_it 1.293 r_angle_other_deg 0.949 r_mcbond_it 0.696
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.232 r_dihedral_angle_4_deg 19.12 r_dihedral_angle_3_deg 13.399 r_dihedral_angle_1_deg 5.696 r_scangle_it 3.781 r_scbond_it 2.288 r_angle_refined_deg 1.425 r_mcangle_it 1.293 r_angle_other_deg 0.949 r_mcbond_it 0.696 r_mcbond_other 0.224 r_chiral_restr 0.085 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10279 Nucleic Acid Atoms Solvent Atoms 805 Heterogen Atoms 92
Software Software Software Name Purpose BOS data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling