X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.6
Temperature 289.0
Details 15% polyethylene glycol 5000MME, 0.1 M sodium citrate tribasic dehydrate, pH 5.6, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 183.28 α = 90
b = 65.35 β = 133.38
c = 126.69 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2011-12-02
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.97915 SSRF BL17U

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 50 98.8 -- -- -- -- 73344 72464 0.0 -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)
2.0 2.11 95.7 -- -- -- -- --

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 2.004 31.672 -- 1.35 73384 72225 3640 98.42 -- 0.1794 0.1771 0.2216 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 2.004 2.0756 -- 335 6445 0.2006 0.2601 -- 93.0
X Ray Diffraction 2.0756 2.1587 -- 357 6888 0.1968 0.2857 -- 99.0
X Ray Diffraction 2.1587 2.2569 -- 333 6957 0.1981 0.2971 -- 100.0
X Ray Diffraction 2.2569 2.3759 -- 387 6853 0.1871 0.2536 -- 99.0
X Ray Diffraction 2.3759 2.5247 -- 383 6854 0.1941 0.2526 -- 99.0
X Ray Diffraction 2.5247 2.7195 -- 380 6947 0.2013 0.2727 -- 100.0
X Ray Diffraction 2.7195 2.993 -- 420 6855 0.1956 0.2467 -- 100.0
X Ray Diffraction 2.993 3.4256 -- 332 6996 0.1862 0.2073 -- 100.0
X Ray Diffraction 3.4256 4.3142 -- 356 6958 0.1577 0.1936 -- 99.0
X Ray Diffraction 4.3142 31.672 -- 357 6832 0.1473 0.1608 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -14.8486
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.3994
Anisotropic B[2][2] 21.1642
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -6.3155
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.094
f_dihedral_angle_d 13.95
f_angle_d 1.159
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7504
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 579

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
AMoRE Structure Solution
PHENIX (phenix.refine: 1.7.1_743) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.1_743) refinement
AMoRE model building
ADSC version: Quantum data collection