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Crystal structure of an alpha helical protein (BF3319) from Bacteroides fragilis NCTC 9343 at 1.70 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9 277 30.0000% PEG-6000, 0.1M Bicine pH 9.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.17 43.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.525 α = 90 b = 58.528 β = 90 c = 94.125 γ = 90
Symmetry Space Group P 21 21 21
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 collimating mirror, toroid focusing mirror 2009-05-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 SSRL BL9-2
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 1.7 29.26 99.4 0.098 0.098 11.1 4.8 30021 18.456
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 1.7 1.74 96.1 0.66 0.66 1.2 4.4 2089
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 1.7 29.26 29976 1517 99.18 0.166 0.164 0.1723 0.192 0.2002 RANDOM 20.711
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] -0.61 -0.32 0.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.315 r_dihedral_angle_4_deg 20.483 r_dihedral_angle_3_deg 13.687 r_scangle_it 5.654 r_dihedral_angle_1_deg 4.945 r_scbond_it 4.033 r_mcangle_it 2.603 r_mcbond_it 2.114 r_angle_refined_deg 1.465 r_angle_other_deg 0.935
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.315 r_dihedral_angle_4_deg 20.483 r_dihedral_angle_3_deg 13.687 r_scangle_it 5.654 r_dihedral_angle_1_deg 4.945 r_scbond_it 4.033 r_mcangle_it 2.603 r_mcbond_it 2.114 r_angle_refined_deg 1.465 r_angle_other_deg 0.935 r_mcbond_other 0.632 r_symmetry_vdw_other 0.258 r_nbd_refined 0.238 r_nbtor_refined 0.178 r_nbd_other 0.176 r_xyhbond_nbd_refined 0.171 r_symmetry_hbond_refined 0.165 r_symmetry_vdw_refined 0.104 r_nbtor_other 0.089 r_chiral_restr 0.086 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d 0.004 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2029 Nucleic Acid Atoms Solvent Atoms 341 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHARP phasing