☰ Navigation Tabs
Structural Characterization of tetrameric Mycobacterium tuberculosis fructose 1,6-bisphosphate aldolase - substrate binding and catalysis mechanism of a class IIa bacterial aldolase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3EKL PDB ENTRY 3EKL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.8 298 26% PEG 300, 0.1 NaAcetate pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 4.06 69.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.22 α = 90 b = 120.486 β = 90 c = 164.327 γ = 90
Symmetry Space Group I 2 2 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 IMAGE PLATE RIGAKU RAXIS IV++ 2008-05-30 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) 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 2.07 97.1 97.5 36655 36655
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.07 2.14 88.6
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 (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 3EKL 2.07 25.9 36648 36648 1838 97.41 0.15909 0.15794 0.1847 0.18014 0.1996 RANDOM 20.638
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] 1.96 -0.8 -1.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.375 r_dihedral_angle_3_deg 15.721 r_dihedral_angle_1_deg 11.042 r_dihedral_angle_4_deg 10.69 r_scangle_it 3.352 r_scbond_it 2.099 r_angle_refined_deg 1.666 r_mcangle_it 1.068 r_mcbond_it 0.609 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.375 r_dihedral_angle_3_deg 15.721 r_dihedral_angle_1_deg 11.042 r_dihedral_angle_4_deg 10.69 r_scangle_it 3.352 r_scbond_it 2.099 r_angle_refined_deg 1.666 r_mcangle_it 1.068 r_mcbond_it 0.609 r_nbtor_refined 0.3 r_chiral_restr 0.251 r_nbd_refined 0.21 r_symmetry_vdw_refined 0.169 r_symmetry_hbond_refined 0.154 r_xyhbond_nbd_refined 0.14 r_metal_ion_refined 0.092 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2578 Nucleic Acid Atoms Solvent Atoms 361 Heterogen Atoms 33
Software Software Software Name Purpose CrystalClear data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling