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Crystal structure of project ID TT0172 from Thermus thermophilus HB8
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JQI PDB ENTRY 1JQI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Microbach 5.6 295 44 v/v(%) MPD, 0.1M Acetate, 10 v/v(%) Dioxane, pH 5.6, Microbach, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.4 48.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 122.401 α = 90 b = 122.401 β = 90 c = 106.112 γ = 90
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 RIGAKU JUPITER Mirror 2004-07-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL26B1 1.0 SPring-8 BL26B1
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 2.3 40 100 0.068 0.063 11.3 5.8 34652 34652 23.6
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 2.3 2.38 100 0.226 0.202 3.7 4.2
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 THROUGHOUT PDB ENTRY 1JQI 2.3 38.71 34652 34652 1729 99.9 0.18 0.18 0.182 0.226 0.1796 RANDOM 38.2
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] 4.08 4.08 -8.16
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 20.9 c_scangle_it 3.17 c_scbond_it 2.15 c_mcangle_it 1.95 c_angle_deg 1.3 c_mcbond_it 1.25 c_improper_angle_d 0.93 c_bond_d 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5856 Nucleic Acid Atoms Solvent Atoms 452 Heterogen Atoms
Software Software Software Name Purpose CNS refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing