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 = 184.03 α = 90
b = 66.65 β = 136.33
c = 133.35 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 -- 2012-05-26
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.97892 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
2.4 50 98.2 -- -- -- -- 43252 42473 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)
2.4 2.54 94.6 -- -- -- -- --

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 2.411 45.954 -- 1.34 43356 42398 2143 97.79 -- 0.1784 0.1745 0.251 --
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 2.411 2.4972 -- 198 3771 0.2158 0.3057 -- 92.0
X Ray Diffraction 2.4972 2.5972 -- 212 3991 0.2245 0.3905 -- 99.0
X Ray Diffraction 2.5972 2.7154 -- 204 4106 0.2215 0.2867 -- 99.0
X Ray Diffraction 2.7154 2.8585 -- 219 4027 0.198 0.2978 -- 99.0
X Ray Diffraction 2.8585 3.0376 -- 194 4131 0.1924 0.2593 -- 100.0
X Ray Diffraction 3.0376 3.2721 -- 213 4096 0.1942 0.2772 -- 100.0
X Ray Diffraction 3.2721 3.6012 -- 210 4106 0.1945 0.2702 -- 100.0
X Ray Diffraction 3.6012 4.1221 -- 237 4082 0.1623 0.2444 -- 100.0
X Ray Diffraction 4.1221 5.1922 -- 247 4082 0.1278 0.1791 -- 99.0
X Ray Diffraction 5.1922 45.954 -- 209 3863 0.1626 0.2375 -- 91.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -22.9123
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -3.3355
Anisotropic B[2][2] 27.9526
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -5.0403
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_chiral_restr 0.083
f_dihedral_angle_d 15.442
f_angle_d 1.143
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7522
Nucleic Acid Atoms 0
Heterogen Atoms 54
Solvent Atoms 202

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