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Crystal structure of a DUF4784 family protein (BACCAC_01631) from Bacteroides caccae ATCC 43185 at 2.50 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.2 293 2.00M ammonium sulfate, 0.00100M GSH (L-Glutathione reduced), GSSG (L-Glutathione oxidized), 0.1M phosphate-citrate pH 4.2, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.07 59.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.084 α = 90 b = 123.084 β = 90 c = 269.91 γ = 120
Symmetry Space Group P 61 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 PIXEL DECTRIS PILATUS 6M Flat mirror (vertical focusing); single crystal Si(111) bent monochromator (horizontal focusing) 2013-01-23 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837,0.97941,0.97871 SSRL BL11-1
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 2.5 33.739 99.9 0.166 13.2 14.1 42660 42660
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 2.5 2.56 100 1.764 1.6 13.8 3114
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 2.5 33.739 42588 2148 99.83 0.2025 0.2015 0.2037 0.2218 0.2204 RANDOM 55.2499
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] -1.13 -1.13 -1.13 3.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.016 r_dihedral_angle_4_deg 18.653 r_dihedral_angle_3_deg 12.967 r_dihedral_angle_1_deg 6.543 r_mcangle_it 3.84 r_mcbond_it 2.261 r_mcbond_other 2.261 r_angle_refined_deg 1.355 r_angle_other_deg 0.687 r_chiral_restr 0.062
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.016 r_dihedral_angle_4_deg 18.653 r_dihedral_angle_3_deg 12.967 r_dihedral_angle_1_deg 6.543 r_mcangle_it 3.84 r_mcbond_it 2.261 r_mcbond_other 2.261 r_angle_refined_deg 1.355 r_angle_other_deg 0.687 r_chiral_restr 0.062 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6436 Nucleic Acid Atoms Solvent Atoms 236 Heterogen Atoms 93
Software Software Software Name Purpose MolProbity model building PDB_EXTRACT data extraction SHELX phasing SHARP phasing SCALA data scaling REFMAC refinement MOSFLM data reduction SHELXD phasing autoSHARP phasing