☰ Navigation Tabs
Crystal structure of Isocitrate Lyase from Burkholderia pseudomallei
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1IGW PDB entry 1IGW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.8 293 24% PEG 1500, 100 MM MES, PROTEIN CONCENTRATION 22MG/ML, PH 5.8, VAPOR DIFFUSIONI, SITTING DROP, TEMPERATURE 293K, VAPOR DIFFUSION, SITTING DROP
Crystal Properties Matthews coefficient Solvent content 2.21 44.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.666 α = 90 b = 137.025 β = 90 c = 160.162 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 2008-06-19 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D APS 23-ID-D
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 2.69 48.91 99.7 0.144 5.8 6.7 48029
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) 2.7 2.8 97.9 0.66 5.2
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 1IGW 2.69 48.91 47959 2426 0.216 0.213 0.2184 0.277 0.2799 RANDOM 31.2
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] -1.2 2.86 -1.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.812 r_dihedral_angle_3_deg 15.073 r_dihedral_angle_4_deg 13.746 r_dihedral_angle_1_deg 5.108 r_scangle_it 1.146 r_angle_refined_deg 1.019 r_angle_other_deg 0.815 r_scbond_it 0.671 r_mcangle_it 0.577 r_mcbond_it 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.812 r_dihedral_angle_3_deg 15.073 r_dihedral_angle_4_deg 13.746 r_dihedral_angle_1_deg 5.108 r_scangle_it 1.146 r_angle_refined_deg 1.019 r_angle_other_deg 0.815 r_scbond_it 0.671 r_mcangle_it 0.577 r_mcbond_it 0.308 r_mcbond_other 0.056 r_chiral_restr 0.055 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 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 12580 Nucleic Acid Atoms Solvent Atoms 150 Heterogen Atoms
Software Software Software Name Purpose MOLREP phasing REFMAC refinement