X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.6
Details THE TERNARY COMPLEX ECLEURS-TRNA-AN3017 WAS CRYSTALLIZED FROM 0.1 M SODIUM ACETATE AT PH 5.6, 14-18 % PEG 6000 AND 200 MM NACL. CRYSTALS WERE FROZEN IN LIQUID NITROGEN USING A CRYOPROTECTING SOLUTION CONTAINING 22 % ETHYLENE GLYCOL

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.9 α = 90
b = 118.8 β = 90
c = 140.4 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2006-12-06
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- ESRF ID14-4

Data Collection

Overall
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
2.2 90.5 99.7 0.07 -- -- 3.99 -- 65794 -- 0.0 --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.2 2.25 99.8 0.46 -- 2.9 3.97 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 2.2 90.54 -- -- -- 62461 3333 99.7 -- 0.20906 0.20682 0.2506 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.2 2.257 -- 227 4578 0.261 0.317 -- 99.77
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 44.762
Anisotropic B[1][1] -0.72
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.47
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.26
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 19.035
r_gen_planes_refined 0.011
r_dihedral_angle_1_deg 7.167
r_dihedral_angle_3_deg 17.104
r_chiral_restr 0.11
r_angle_refined_deg 1.361
r_bond_refined_d 0.014
r_dihedral_angle_2_deg 32.847
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6517
Nucleic Acid Atoms 1767
Heterogen Atoms 3
Solvent Atoms 274

Software

Software
Software Name Purpose
REFMAC refinement version: 5.6.0085
XDS data reduction
XSCALE data scaling
PHASER phasing