X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details 0.2 M tri-sodium citrate, 0.1 M HEPES pH 7.5, 10% isopropanol, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 105.7 α = 90
b = 106.45 β = 90
c = 124.88 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2010-10-05
Diffraction Radiation
Monochromator Protocol
Double silicon(111) crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 0.9801 NSLS X25

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
2.8 50 99.9 0.065 -- -- 7.6 -- n/a 0.0 0.0 --
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)
2.8 2.9 100.0 -- -- -- -- --

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
SAD 2.812 44.427 -- 0.0 33500 33500 1935 95.86 0.2078 0.2078 0.2057 0.2427 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 2.812 2.8822 -- 119 1985 0.341 0.4309 -- 85.0
X Ray Diffraction 2.8822 2.9601 -- 135 2137 0.2908 0.3169 -- 93.0
X Ray Diffraction 2.9601 3.0472 -- 140 2149 0.2684 0.2975 -- 93.0
X Ray Diffraction 3.0472 3.1456 -- 139 2180 0.2465 0.2983 -- 95.0
X Ray Diffraction 3.1456 3.2579 -- 135 2199 0.2362 0.2587 -- 95.0
X Ray Diffraction 3.2579 3.3883 -- 138 2216 0.23 0.3169 -- 95.0
X Ray Diffraction 3.3883 3.5425 -- 133 2234 0.2053 0.2289 -- 96.0
X Ray Diffraction 3.5425 3.7292 -- 136 2275 0.1933 0.2518 -- 97.0
X Ray Diffraction 3.7292 3.9627 -- 141 2292 0.1851 0.2356 -- 98.0
X Ray Diffraction 3.9627 4.2684 -- 140 2310 0.1657 0.1996 -- 99.0
X Ray Diffraction 4.2684 4.6975 -- 136 2353 0.1587 0.2075 -- 99.0
X Ray Diffraction 4.6975 5.3763 -- 142 2369 0.1843 0.2248 -- 100.0
X Ray Diffraction 5.3763 6.7697 -- 147 2394 0.2312 0.2538 -- 100.0
X Ray Diffraction 6.7697 44.4322 -- 154 2472 0.2134 0.2309 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 26.0772
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -16.0196
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -13.7084
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.08
f_dihedral_angle_d 15.517
f_angle_d 1.177
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5541
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 4

Software

Computing
Computing Package Purpose
CBASS Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
Phenix Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
Phenix model building
CBASS data collection