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crystal structure of a putative RNA methyltransferase PH1948 from Pyrococcus horikoshii
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.2 293 PEG400, HEPES-Na, CaCl2, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.8 55.629986
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 206.975 α = 90 b = 43.141 β = 92.08 c = 118.24 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 CCD ADSC QUANTUM 210 2004-12-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.0000 Photon Factory AR-NW12A
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 2.2 39.86 99.3 0.046 0.046 20 5 53514 53514 47.46
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 2.2 2.28 94.9 0.218 0.218 5.6 4.1 5050
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2.2 10 2 52894 52329 5222 98.3 0.242 0.2438 0.268 0.2701 random 45.11
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] -6.873 -1.417 -3.079 9.952
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 23.53 c_scangle_it 3.324 c_scbond_it 2.5 c_mcangle_it 2.141 c_mcbond_it 1.505 c_angle_deg 1.39 c_improper_angle_d 0.81 c_bond_d 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6407 Nucleic Acid Atoms Solvent Atoms 312 Heterogen Atoms 104
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing CNS refinement