X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 291.0
Details 2.3M NaCl, 0.4M Na/K Phosphate, 0.01M DTT, 15% Glycerol, 0.1M MES pH 6.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 125.48 α = 90
b = 125.48 β = 90
c = 74.14 γ = 120
Symmetry
Space Group P 64

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX225HE -- 2010-07-26
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL26B2 1.000 SPring-8 BL26B2

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
2.6 50 100.0 -- 0.09 -- 11.4 -- 20659 -- -3.0 --
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)
2.6 2.64 100.0 1.977 -- 1.6 11.5 --

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 2.597 35.927 -- 0.01 -- 20589 1057 99.59 -- 0.1941 0.1923 0.2268 --
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 2.5974 2.6578 -- 140 2482 0.3849 0.5007 -- 97.0
X Ray Diffraction 2.6578 2.7242 -- 121 2551 0.3401 0.3268 -- 100.0
X Ray Diffraction 2.7242 2.7979 -- 137 2583 0.316 0.3626 -- 100.0
X Ray Diffraction 2.7979 2.8802 -- 130 2500 0.2897 0.3632 -- 100.0
X Ray Diffraction 2.8802 2.9731 -- 158 2543 0.2735 0.3472 -- 100.0
X Ray Diffraction 2.9731 3.0793 -- 128 2564 0.2517 0.3153 -- 100.0
X Ray Diffraction 3.0793 3.2025 -- 130 2529 0.2437 0.3292 -- 100.0
X Ray Diffraction 3.2025 3.3482 -- 151 2531 0.2278 0.2607 -- 100.0
X Ray Diffraction 3.3482 3.5245 -- 131 2544 0.2012 0.2342 -- 99.0
X Ray Diffraction 3.5245 3.7451 -- 129 2559 0.1923 0.2239 -- 100.0
X Ray Diffraction 3.7451 4.034 -- 150 2532 0.1766 0.1937 -- 100.0
X Ray Diffraction 4.034 4.4392 -- 152 2516 0.1462 0.2063 -- 100.0
X Ray Diffraction 4.4392 5.0801 -- 131 2527 0.1309 0.1548 -- 100.0
X Ray Diffraction 5.0801 6.3945 -- 115 2579 0.1775 0.179 -- 100.0
X Ray Diffraction 6.3945 35.9308 -- 137 2541 0.1788 0.2045 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 12.073
f_chiral_restr 0.059
f_bond_d 0.009
f_plane_restr 0.006
f_angle_d 0.965
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2118
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 34

Software

Software
Software Name Purpose
PHENIX refinement version: (1.10.1_2155: ???)
HKL-2000 data processing
PHASER phasing
HKL-2000 data reduction