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Crystal Structure of SusF from Bacteroides thetaiotaomicron
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other Semet SusF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.3 292 6-12% glycerol, 1.5-2M Na/KPO4, pH 6.3, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 3.81 67.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 188.694 α = 90 b = 49.148 β = 97.36 c = 83.618 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 130 CCD MARMOSAIC 300 mm CCD mirrors 2010-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 0.97941 APS 21-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 50 89.1 0.069 16.9 2.5 46531
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.03 77.3 0.253 3.5 1.9
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 SEMET SUSF 2 50 46195 2351 89 0.201 0.199 0.2009 0.247 0.2458 RANDOM 21.69
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] 0.85 1.34 0.31 -0.82
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.87 r_dihedral_angle_3_deg 17.009 r_dihedral_angle_4_deg 14.495 r_dihedral_angle_1_deg 8.224 r_scangle_it 7.999 r_scbond_it 5.131 r_mcangle_it 1.843 r_mcbond_it 1.096 r_angle_refined_deg 1.018 r_chiral_restr 0.096
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.87 r_dihedral_angle_3_deg 17.009 r_dihedral_angle_4_deg 14.495 r_dihedral_angle_1_deg 8.224 r_scangle_it 7.999 r_scbond_it 5.131 r_mcangle_it 1.843 r_mcbond_it 1.096 r_angle_refined_deg 1.018 r_chiral_restr 0.096 r_gen_planes_refined 0.02 r_bond_refined_d 0.016 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_other r_long_range_B_refined 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 3375 Nucleic Acid Atoms Solvent Atoms 239 Heterogen Atoms 178
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MD2 data collection HKL-2000 data reduction HKL-2000 data scaling AMoRE phasing