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Crystal Structutre of Thiobacillus thioparus THI115 Carbonyl Sulfide Hydrolase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1YLK PDB ENTRY 1YLK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 1.2M AMMONIUM SULFATE, 200mM SODIIUM CHLORIDE, 30% GLYCEROL, 100mM TRIS, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.28 46.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.239 α = 90 b = 90.239 β = 90 c = 104.976 γ = 90
Symmetry Space Group I 4 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 95 CCD ADSC QUANTUM 4r 2009-10-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-6A 0.97800 Photon Factory BL-6A
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 1.2 50 99.8 0.063 0.063 35.6 8.3 67414 67414 -3 7.4
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 1.2 1.24 100 0.315 0.315 7.6 8.2 6662
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 MOLECULAR REPLACEMENT FREE R PDB ENTRY 1YLK 1.2 10 63916 63916 3373 94.8 0.1353 0.1353 0.1252 0.1698 0.1558 RANDOM 4.1
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 21 1835.8
RMS Deviations Key Refinement Restraint Deviation s_non_zero_chiral_vol 0.085 s_zero_chiral_vol 0.076 s_approx_iso_adps 0.052 s_from_restr_planes 0.0308 s_angle_d 0.029 s_similar_adp_cmpnt 0.025 s_anti_bump_dis_restr 0.023 s_bond_d 0.013 s_rigid_bond_adp_cmpnt 0.005 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1587 Nucleic Acid Atoms Solvent Atoms 256 Heterogen Atoms 2
Software Software Software Name Purpose SERGUI data collection MOLREP phasing SHELXL-97 refinement HKL-2000 data reduction SCALEPACK data scaling