X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7.4
Temperature 293.0
Details 10 mM HEPES (pH 7.4), 350 mM NaCl, and 5 mM MgCl2, VAPOR DIFFUSION, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 71.2 α = 90
b = 93.2 β = 90
c = 98.6 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 77
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- --
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.075 NSLS X29A

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
2.3 67.7 -- -- -- -- -- 18616 18604 -- -- --

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 2.7 67.7 -- 1.99 18604 18574 930 99.78 0.2311 0.2311 0.2285 0.2827 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 2.7 2.8424 -- 131 2481 0.3548 0.3975 -- 100.0
X Ray Diffraction 2.8424 3.0205 -- 130 2467 0.3119 0.3615 -- 100.0
X Ray Diffraction 3.0205 3.2537 -- 131 2476 0.2838 0.3479 -- 100.0
X Ray Diffraction 3.2537 3.5811 -- 132 2511 0.2386 0.2845 -- 100.0
X Ray Diffraction 3.5811 4.0992 -- 132 2504 0.2031 0.2697 -- 100.0
X Ray Diffraction 4.0992 5.1643 -- 135 2550 0.1895 0.217 -- 100.0
X Ray Diffraction 5.1643 67.7522 -- 139 2655 0.2008 0.2655 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.055
f_dihedral_angle_d 20.014
f_angle_d 0.776
f_bond_d 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2741
Nucleic Acid Atoms 758
Heterogen Atoms 32
Solvent Atoms 50

Software

Computing
Computing Package Purpose
CBASS Data Collection
XDS Data Reduction (intensity integration)
XDS Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.8_1069) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8_1069) refinement
PHASER model building
CBASS data collection