☰ Navigation Tabs
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 acetate, DTT, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.23 42.8 2.41 47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.725 α = 90 b = 120.114 β = 90 c = 95.303 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 100 CCD MARRESEARCH 2005-02-02 SINGLE WAVELENGTH 2 1 x-ray 293 CCD MARRESEARCH 2005-05-26 SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 1.06 EMBL/DESY, HAMBURG BW7A 2 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 1.04 EMBL/DESY, HAMBURG BW7A
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 2.14 99 98.1 0.055 33.4 7.81 13122 5.6
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 2.14 2.2 97.8 0.393 5.6 831
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 MIR THROUGHOUT 2.14 20 12527 619 94.38 0.218 0.216 0.2215 0.256 0.263 RANDOM 45.075
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] -1.35 1.14 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.415 r_dihedral_angle_4_deg 19.826 r_dihedral_angle_3_deg 13.338 r_dihedral_angle_1_deg 6.364 r_scangle_it 2.155 r_scbond_it 1.354 r_angle_refined_deg 1.317 r_mcangle_it 0.788 r_angle_other_deg 0.717 r_mcbond_it 0.571
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.415 r_dihedral_angle_4_deg 19.826 r_dihedral_angle_3_deg 13.338 r_dihedral_angle_1_deg 6.364 r_scangle_it 2.155 r_scbond_it 1.354 r_angle_refined_deg 1.317 r_mcangle_it 0.788 r_angle_other_deg 0.717 r_mcbond_it 0.571 r_nbd_other 0.192 r_symmetry_vdw_other 0.189 r_nbd_refined 0.179 r_nbtor_refined 0.171 r_xyhbond_nbd_refined 0.138 r_symmetry_vdw_refined 0.13 r_mcbond_other 0.118 r_nbtor_other 0.086 r_chiral_restr 0.069 r_symmetry_hbond_refined 0.039 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1613 Nucleic Acid Atoms Solvent Atoms 47 Heterogen Atoms 12
Software Software Software Name Purpose SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection DENZO data reduction SCALEPACK data scaling