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Crystal Structure of a Phosphoribosyltransferase-related protein from Thermus thermophilus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other Partial structure from MAD data set
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 291 MES, PEG 10K, CaAc, MeOH, pH 5.6, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.72 54.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 167.419 α = 90 b = 61.405 β = 93.97 c = 102.389 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS mirrors 2003-01-04 M SINGLE WAVELENGTH 2 1 x-ray M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL26B1 0.976, 0.97935, 0.982, 0.97904, 0.973 SPring-8 BL26B1
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 1.9 50 98.7 0.053 19.8 3.6 80673 80673 21.3
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) 1.9 1.97 98.2 0.501 2.1 3.5 7693
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, MAD THROUGHOUT Partial structure from MAD data set 1.94 44.98 73828 73828 3728 95.8 0.232 0.232 0.2272 0.259 0.2546 RANDOM 46.7
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] 0.58 3.61 -0.3 -0.29
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24.7 c_scangle_it 7.02 c_scbond_it 5.39 c_mcangle_it 5.14 c_mcbond_it 3.93 c_angle_deg 1.4 c_improper_angle_d 0.99 c_bond_d 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6504 Nucleic Acid Atoms Solvent Atoms 389 Heterogen Atoms 6
Software Software Software Name Purpose CNS refinement HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing