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Crystal structures and biochemical characterization of the bacterial solute receptor AcbH reveal an unprecedented exclusive substrate preference for b-D-galactopyranose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other model from SeMet SAD phasing
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 291 2.2M (NH4)2SO4, 100mM citric acid , pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.52 51.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.25 α = 90 b = 66.117 β = 89.97 c = 177.709 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 100 CCD ADSC QUANTUM 210 mirrors 2010-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.91841 BESSY 14.2
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 2.04 33.75 98.4 0.104 9.48 3.3 57305 -3 23.568
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.04 2.09 96.3 0.538 0.655 2.2
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 model from SeMet SAD phasing 2.04 33.75 54440 2866 100 0.1704 0.1675 0.1688 0.2255 0.2268 RANDOM 17.6948
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] -1.38 -0.15 0.19 1.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.052 r_dihedral_angle_4_deg 17.926 r_dihedral_angle_3_deg 13.556 r_dihedral_angle_1_deg 5.298 r_scangle_it 4.695 r_scbond_it 3.26 r_mcangle_it 1.742 r_mcbond_it 1.083 r_angle_refined_deg 1.047 r_chiral_restr 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.052 r_dihedral_angle_4_deg 17.926 r_dihedral_angle_3_deg 13.556 r_dihedral_angle_1_deg 5.298 r_scangle_it 4.695 r_scbond_it 3.26 r_mcangle_it 1.742 r_mcbond_it 1.083 r_angle_refined_deg 1.047 r_chiral_restr 0.09 r_gen_planes_refined 0.013 r_bond_refined_d 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6158 Nucleic Acid Atoms Solvent Atoms 933 Heterogen Atoms 119
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction ADSC data collection PHASER phasing