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Crystal structure of a susd superfamily protein (bf3413) from bacteroides fragilis nctc 9343 at 2.10 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.43 293 NANODROP, 25.0% PEG 3000, 0.1M Sodium acetate pH 4.43, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.15 42.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.921 α = 90 b = 50.377 β = 108.05 c = 117.95 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 MARMOSAIC 325 mm CCD Flat mirror, vertical and horizontal focusing mirrors 2009-01-28 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.91837, 0.97946, 0.97907 SSRL BL12-2
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 2.09 29.63 93.2 0.041 57418 -3 37.054
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.09 2.16 77.9 0.403 2
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 MAD THROUGHOUT 2.09 29.63 57418 2934 97.27 0.158 0.156 0.1659 0.198 0.2069 RANDOM 51.818
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] 0.81 0.3 -0.43 -0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.557 r_dihedral_angle_4_deg 11.981 r_dihedral_angle_3_deg 10.288 r_scangle_it 5.217 r_scbond_it 4.052 r_dihedral_angle_1_deg 3.357 r_mcangle_it 2.283 r_mcbond_it 1.598 r_angle_refined_deg 1.157 r_angle_other_deg 0.983
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.557 r_dihedral_angle_4_deg 11.981 r_dihedral_angle_3_deg 10.288 r_scangle_it 5.217 r_scbond_it 4.052 r_dihedral_angle_1_deg 3.357 r_mcangle_it 2.283 r_mcbond_it 1.598 r_angle_refined_deg 1.157 r_angle_other_deg 0.983 r_mcbond_other 0.401 r_symmetry_hbond_refined 0.218 r_nbd_refined 0.201 r_symmetry_vdw_other 0.199 r_nbtor_refined 0.181 r_symmetry_vdw_refined 0.181 r_nbd_other 0.17 r_xyhbond_nbd_refined 0.17 r_chiral_restr 0.087 r_nbtor_other 0.086 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7734 Nucleic Acid Atoms Solvent Atoms 503 Heterogen Atoms 64
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction MAR345 data collection XDS data reduction autoSHARP phasing SHELXD phasing