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Structure of the sulfur carrier protein SoxY from Chlorobium limicola f thiosulfatophilum
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4 294 Ammonium phosphate, sodium phsophate, DTT, pH 4.0, vapor diffusion, hanging drop, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.4 46.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.22 α = 90 b = 122.646 β = 90 c = 97.289 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 294 IMAGE PLATE MAC Science DIP-2030 2005-01-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR591
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 2.39 20 100 0.084 17.5 4.8 10173 3.4
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 2.39 2.43 100 0.532 3.4 4.7 498
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION Rigid Body THROUGHOUT 2.39 20 10126 493 99.97 0.191 0.188 0.1908 0.248 0.2508 RANDOM 43.144
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] -0.47 0.58 -0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.884 r_dihedral_angle_4_deg 18.32 r_dihedral_angle_3_deg 15.629 r_dihedral_angle_1_deg 5.996 r_scangle_it 2.224 r_scbond_it 1.392 r_angle_refined_deg 1.284 r_mcangle_it 0.78 r_angle_other_deg 0.724 r_mcbond_it 0.569
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.884 r_dihedral_angle_4_deg 18.32 r_dihedral_angle_3_deg 15.629 r_dihedral_angle_1_deg 5.996 r_scangle_it 2.224 r_scbond_it 1.392 r_angle_refined_deg 1.284 r_mcangle_it 0.78 r_angle_other_deg 0.724 r_mcbond_it 0.569 r_symmetry_vdw_refined 0.2 r_nbd_other 0.195 r_symmetry_vdw_other 0.192 r_nbd_refined 0.186 r_nbtor_refined 0.172 r_mcbond_other 0.114 r_xyhbond_nbd_refined 0.091 r_nbtor_other 0.088 r_chiral_restr 0.065 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1613 Nucleic Acid Atoms Solvent Atoms 39 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling PDB_EXTRACT data extraction XPRESS data collection