X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.3
Temperature 293.0
Details 1UL, 1mM D(ATGCAT)2 1UL, 3mM RAC-[RU(PHEN)2DPPZ]2CL 6UL, 40mM SPERMINE, 40mM SODIUM CACODYLATE PH 6.3, 10% MPD (V/V), 80 mM KCL, 20 mM BaCL2, 1ML OF 35% MPD, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.55 α = 90
b = 37.55 β = 90
c = 54.37 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2012-10-07
Diffraction Radiation
Monochromator Protocol
DUAL SI (111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I02 -- DIAMOND I02

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
1.16 32.52 98.6 -- -- -- -- -- 15712 -- 1.5 --
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)
1.16 1.18 98.8 -- -- -- -- --

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 1.16 32.52 -- 1.34 15894 15678 789 98.1 -- 0.139 0.138 0.162 --
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 1.157 1.2295 -- 142 2420 0.2298 0.2602 -- 98.0
X Ray Diffraction 1.2295 1.3244 -- 125 2431 0.1852 0.2273 -- 98.0
X Ray Diffraction 1.3244 1.4577 -- 134 2440 0.1332 0.1811 -- 98.0
X Ray Diffraction 1.4577 1.6687 -- 128 2488 0.105 0.1515 -- 99.0
X Ray Diffraction 1.6687 2.1023 -- 137 2505 0.123 0.1346 -- 99.0
X Ray Diffraction 2.1023 32.5319 -- 123 2605 0.1404 0.1607 -- 97.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.029
f_chiral_restr 0.091
f_dihedral_angle_d 32.509
f_angle_d 2.966
f_bond_d 0.015
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 0
Nucleic Acid Atoms 240
Heterogen Atoms 103
Solvent Atoms 95

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
AIMLESS Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (PHENIX.REFINE: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8.1_1168) refinement
PHASER model building
GDA data collection