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Crystal structure of SusD superfamily protein (YP_001299712.1) from Bacteroides vulgatus ATCC 8482 at 1.13 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 277 1.60M (NH4)2SO4, 0.1M TRIS pH 8.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.34 47.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.804 α = 90 b = 75.804 β = 90 c = 323.966 γ = 120
Symmetry Space Group P 65 2 2
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 MARMOSAIC 325 mm CCD Flat mirror, vertical and horizontal focussing mirrors 2009-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 SSRL BL12-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.13 29.45 91.5 0.111 0.111 9.3 5 187091 7.466
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.13 1.16 58.1 0.58 0.58 1.3 3.6 8584
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 1.13 29.45 187080 9433 90.93 0.118 0.117 0.1558 0.137 0.1679 RANDOM 13.075
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] 0.16 0.08 0.16 -0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.015 r_dihedral_angle_4_deg 15.435 r_dihedral_angle_3_deg 11.578 r_sphericity_free 9.239 r_dihedral_angle_1_deg 6.113 r_scangle_it 4.421 r_sphericity_bonded 3.897 r_scbond_it 3.213 r_mcangle_it 2.206 r_angle_refined_deg 1.673
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.015 r_dihedral_angle_4_deg 15.435 r_dihedral_angle_3_deg 11.578 r_sphericity_free 9.239 r_dihedral_angle_1_deg 6.113 r_scangle_it 4.421 r_sphericity_bonded 3.897 r_scbond_it 3.213 r_mcangle_it 2.206 r_angle_refined_deg 1.673 r_mcbond_it 1.553 r_rigid_bond_restr 1.529 r_angle_other_deg 1.013 r_mcbond_other 0.732 r_chiral_restr 0.112 r_bond_refined_d 0.016 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3866 Nucleic Acid Atoms Solvent Atoms 833 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SOLVE phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction