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STRUCTURAL AND ENERGETIC ANALYSIS OF RNA RECOGNITION BY A UNIVERSALLY CONSERVED PROTEIN FROM THE SIGNAL RECOGNITION PARTICLE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DUL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 5.6 293 Na-MES,
isopropanol,
potassium chloride,
magnesium chloride,
MPD, pH 5.6, EVAPORATION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.12 60.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 136.555 α = 90 b = 78.337 β = 96.24 c = 32.872 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 1999-05-20 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 1.039177, 1.039988, 0.999 ALS 5.0.2
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 1.52 40 98.2 0.07 0.069 35.3 10.8 1178959 51967 19.8
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) 1.52 1.57 89.3 0.49 1.6 2.5 4750
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 (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R 1DUL 1.52 10 1178959 51967 2031 88.8 0.157 0.151 0.151 0.1495 0.199 RANDOM
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 1952
RMS Deviations Key Refinement Restraint Deviation s_approx_iso_adps 0.1 s_non_zero_chiral_vol 0.06 s_similar_adp_cmpnt 0.05 s_zero_chiral_vol 0.04 s_angle_d 0.03 s_from_restr_planes 0.023 s_bond_d 0.01 s_anti_bump_dis_restr 0.01 s_similar_dist s_rigid_bond_adp_cmpnt
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 606 Nucleic Acid Atoms 1054 Solvent Atoms 287 Heterogen Atoms 7
Software Software Software Name Purpose AMoRE phasing SHELXL-97 refinement DENZO data reduction SCALEPACK data scaling