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Structure of siderophore binding protein BauB bound to a complex between two molecules of acinetobactin and ferric iron.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3GFV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 287 25% PEG MME 5k, 50 mM MES 2 VAPOR DIFFUSION, HANGING DROP 8 287 34% PEG 4k, 100 mM EPPS
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.762 α = 90 b = 137.055 β = 90.02 c = 56.208 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 113 PIXEL DECTRIS PILATUS3 6M M SINGLE WAVELENGTH 2 1 x-ray 113 PIXEL DECTRIS PILATUS3 6M 2018-02-10 M SINGLE WAVELENGTH 3 2 x-ray 113 PIXEL DECTRIS PILATUS3 6M 2017-11-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.9795 SSRL BL12-2 2 SYNCHROTRON SSRL BEAMLINE BL12-2 0.9795 SSRL BL12-2 3 SYNCHROTRON APS BEAMLINE 23-ID-D 1.0332 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 1.9 68 99.2 0.178 0.204 0.056 0.97 11.6 7.8 44580
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2 90.5 0.57 0.204 0.076 0.974 6.7 6.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 3GFV 1.9 56.208 1.34 44255 2140 98.56 0.1715 0.1694 0.2138 0.2171 random
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 17.154 f_angle_d 1.118 f_chiral_restr 0.069 f_bond_d 0.011 f_plane_restr 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4422 Nucleic Acid Atoms Solvent Atoms 372 Heterogen Atoms 110
Software Software Software Name Purpose PHENIX refinement MOSFLM data reduction Aimless data scaling PHENIX phasing