☰ Navigation Tabs
Upf1 helicase - RNA complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WJV PDB ENTRY 2WJV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.6 100 MM SODIUM ACETATE PH 4.6, 20 MM CACL2, 15% MPD
Crystal Properties Matthews coefficient Solvent content 2.48 50.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.066 α = 90 b = 101.896 β = 90 c = 112.32 γ = 90
Symmetry Space Group P 21 21 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 PIXEL DECTRIS PILATUS 6M LN2-COOLED DYNAMICALLY BENDABLE MIRROR 2010-03-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 2.4 49.18 99.8 0.09 14.5 6.2 35441 3.3 39.78
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 2.4 2.52 98.5 0.59 3.3 6.1
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB ENTRY 2WJV 2.395 49.184 1.36 35386 1774 99.75 0.1947 0.1927 0.1864 0.2329 0.2259 41.7
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] -0.1609 -0.8544 1.0154
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 13.89 f_angle_d 1.024 f_chiral_restr 0.065 f_bond_d 0.007 f_plane_restr 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4625 Nucleic Acid Atoms 124 Solvent Atoms 125 Heterogen Atoms 58
Software Software Software Name Purpose PHENIX refinement XDS data reduction SCALA data scaling PHASER phasing