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The crystal structure of the Burkholderia pseudomallei HicAB complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6G1N
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 289 0.1 M MES pH 6.5 0.2 M NH4S04 16% (w/v) PEG 5000 MME
25% (v/v) glycerol
Crystal Properties Matthews coefficient Solvent content 2.89 57.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.14 α = 90 b = 74.19 β = 90.05 c = 85.31 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 80 PIXEL DECTRIS PILATUS 6M-F 2016-09-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) 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 2.49 38.15 99.9 0.111 0.12 0.997 14.1 6.8 35696 66
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.49 2.53 99.8 1.246 1.349 0.655 6.8
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 6G1N 2.49 34.02 35696 1722 99.82 0.18905 0.18692 0.1875 0.23254 0.233 RANDOM 56.901
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] 1.94 -2.59 0.99 -2.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.427 r_dihedral_angle_4_deg 20.116 r_dihedral_angle_3_deg 18.853 r_long_range_B_refined 16.663 r_scbond_it 14.195 r_mcangle_it 11.786 r_mcbond_it 10.065 r_dihedral_angle_1_deg 4.865 r_angle_refined_deg 1.739 r_chiral_restr 0.123
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.427 r_dihedral_angle_4_deg 20.116 r_dihedral_angle_3_deg 18.853 r_long_range_B_refined 16.663 r_scbond_it 14.195 r_mcangle_it 11.786 r_mcbond_it 10.065 r_dihedral_angle_1_deg 4.865 r_angle_refined_deg 1.739 r_chiral_restr 0.123 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6089 Nucleic Acid Atoms Solvent Atoms 269 Heterogen Atoms 107
Software Software Software Name Purpose REFMAC refinement XDS data reduction xia2 data scaling MOLREP phasing