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3D structure of FliC from Burkholderia pseudomallei
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3K8V PDB ENTRIES 3K8V, 1IO1 AND 3V47 experimental model PDB 1IO1 PDB ENTRIES 3K8V, 1IO1 AND 3V47 experimental model PDB 3V47 PDB ENTRIES 3K8V, 1IO1 AND 3V47
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 0.1 M HEPES PH 7.5, 25% PEG 6000 AND 0.1 M LITHIUM CHLORIDE
Crystal Properties Matthews coefficient Solvent content 2.07 40.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 23.47 α = 90 b = 72.78 β = 90 c = 125.57 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 287 2013-07-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
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 1.3 24.26 99.7 0.05 14 4.3 51380 2
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 1.3 1.32 99.3 0.28 4.8 3.9
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 ENTRIES 3K8V, 1IO1 AND 3V47 1.3 23.83 54199 2753 99.56 0.13774 0.13633 0.1511 0.16461 0.1773 RANDOM 12.771
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] 0.77 -0.28 -0.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.488 r_dihedral_angle_4_deg 28.324 r_sphericity_free 21.047 r_dihedral_angle_3_deg 12.504 r_sphericity_bonded 8.021 r_dihedral_angle_1_deg 5.238 r_rigid_bond_restr 2.386 r_scbond_it 1.732 r_mcangle_it 1.542 r_angle_refined_deg 1.172
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.488 r_dihedral_angle_4_deg 28.324 r_sphericity_free 21.047 r_dihedral_angle_3_deg 12.504 r_sphericity_bonded 8.021 r_dihedral_angle_1_deg 5.238 r_rigid_bond_restr 2.386 r_scbond_it 1.732 r_mcangle_it 1.542 r_angle_refined_deg 1.172 r_mcbond_it 1.1 r_mcbond_other 1.099 r_angle_other_deg 0.763 r_chiral_restr 0.069 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1813 Nucleic Acid Atoms Solvent Atoms 279 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing