X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.2
Temperature 277.0
Details 0.2 M KCl, 0.04 M Tris pH 7.9, 0.1 M Phosphate-Citrate, 1.6 M Sodium di-Hydrogen Phosphate, 0.4 M di-Potassium Hydrogen Phosphate, 0.05 M Sodium Iodide , VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 198.06 α = 90
b = 65.63 β = 108.92
c = 81.29 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
IMAGE PLATE ADSC QUANTUM 315 -- 2010-10-06
Diffraction Radiation
Monochromator Protocol
Si (iii) Channel SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X25 0.9802 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
2.1 50 98.6 0.104 -- -- 5.6 58175 58175 0.0 0.0 29.03
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)
2.1 2.14 98.6 0.658 -- 2.79 5.6 2880

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 2.1 35.987 -- 1.33 58175 58074 2947 97.84 -- 0.2053 0.2034 0.2405 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 2.0819 2.1161 -- 127 2237 0.226 0.2689 -- 85.0
X Ray Diffraction 2.1161 2.1526 -- 148 2569 0.2139 0.2835 -- 98.0
X Ray Diffraction 2.1526 2.1917 -- 131 2637 0.2176 0.2912 -- 98.0
X Ray Diffraction 2.1917 2.2338 -- 138 2603 0.2158 0.2833 -- 98.0
X Ray Diffraction 2.2338 2.2794 -- 129 2650 0.2087 0.2581 -- 98.0
X Ray Diffraction 2.2794 2.329 -- 113 2676 0.2088 0.2318 -- 98.0
X Ray Diffraction 2.329 2.3832 -- 137 2587 0.2162 0.2708 -- 99.0
X Ray Diffraction 2.3832 2.4427 -- 133 2678 0.2256 0.2976 -- 99.0
X Ray Diffraction 2.4427 2.5088 -- 128 2632 0.2226 0.2927 -- 99.0
X Ray Diffraction 2.5088 2.5826 -- 157 2634 0.2283 0.2741 -- 99.0
X Ray Diffraction 2.5826 2.6659 -- 115 2667 0.2196 0.3012 -- 99.0
X Ray Diffraction 2.6659 2.7612 -- 143 2663 0.2154 0.2584 -- 99.0
X Ray Diffraction 2.7612 2.8717 -- 161 2617 0.2123 0.2406 -- 99.0
X Ray Diffraction 2.8717 3.0023 -- 142 2695 0.2202 0.2349 -- 99.0
X Ray Diffraction 3.0023 3.1605 -- 154 2667 0.2112 0.271 -- 99.0
X Ray Diffraction 3.1605 3.3584 -- 156 2627 0.2005 0.2405 -- 99.0
X Ray Diffraction 3.3584 3.6175 -- 157 2621 0.1757 0.1988 -- 98.0
X Ray Diffraction 3.6175 3.9811 -- 154 2624 0.1784 0.2182 -- 98.0
X Ray Diffraction 3.9811 4.5562 -- 145 2688 0.1617 0.2067 -- 99.0
X Ray Diffraction 4.5562 5.7365 -- 147 2676 0.1957 0.2169 -- 99.0
X Ray Diffraction 5.7365 35.9924 -- 132 2679 0.248 0.2402 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 36.13
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.07
f_dihedral_angle_d 12.183
f_angle_d 1.198
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5872
Nucleic Acid Atoms 0
Heterogen Atoms 63
Solvent Atoms 528

Software

Computing
Computing Package Purpose
CBASS Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHENIX (phenix.autosol) Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8.1_1168) refinement
PHENIX version: (phenix.autosol) model building
CBASS data collection