X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details 9 % PEG 4000, 200 mM Li2SO4, 100 mM Tris/Cl-, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.01 α = 90
b = 70.26 β = 90
c = 217.88 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 MARMOSAIC 225 mm CCD -- 2010-01-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM 1 APS 22-BM

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
1.89 50 90.3 -- -- -- -- 76674 69237 -- -- --

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 1.895 37.032 -- 1.34 76632 69130 3470 90.21 -- 0.1893 0.1869 0.2328 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 1.8946 1.9206 -- 63 1452 0.3099 0.3744 -- 51.0
X Ray Diffraction 1.9206 1.948 -- 85 1706 0.2879 0.3626 -- 59.0
X Ray Diffraction 1.948 1.9771 -- 98 2032 0.2699 0.3507 -- 71.0
X Ray Diffraction 1.9771 2.008 -- 121 2228 0.2484 0.3403 -- 76.0
X Ray Diffraction 2.008 2.0409 -- 120 2396 0.2368 0.3023 -- 84.0
X Ray Diffraction 2.0409 2.0761 -- 123 2578 0.2385 0.3013 -- 88.0
X Ray Diffraction 2.0761 2.1139 -- 147 2618 0.2334 0.2833 -- 92.0
X Ray Diffraction 2.1139 2.1545 -- 147 2713 0.2229 0.2735 -- 95.0
X Ray Diffraction 2.1545 2.1985 -- 157 2757 0.2144 0.3032 -- 95.0
X Ray Diffraction 2.1985 2.2463 -- 163 2736 0.2115 0.3012 -- 97.0
X Ray Diffraction 2.2463 2.2985 -- 126 2781 0.198 0.2384 -- 95.0
X Ray Diffraction 2.2985 2.356 -- 155 2781 0.1994 0.2839 -- 97.0
X Ray Diffraction 2.356 2.4197 -- 133 2765 0.2047 0.2781 -- 95.0
X Ray Diffraction 2.4197 2.4909 -- 150 2763 0.2169 0.2634 -- 95.0
X Ray Diffraction 2.4909 2.5712 -- 157 2754 0.212 0.3029 -- 96.0
X Ray Diffraction 2.5712 2.6631 -- 158 2803 0.2003 0.2606 -- 97.0
X Ray Diffraction 2.6631 2.7697 -- 135 2793 0.1947 0.2656 -- 96.0
X Ray Diffraction 2.7697 2.8957 -- 152 2812 0.1937 0.2676 -- 96.0
X Ray Diffraction 2.8957 3.0483 -- 143 2803 0.1835 0.2348 -- 96.0
X Ray Diffraction 3.0483 3.2392 -- 142 2853 0.1898 0.2523 -- 96.0
X Ray Diffraction 3.2392 3.4891 -- 167 2828 0.1932 0.2158 -- 97.0
X Ray Diffraction 3.4891 3.8399 -- 151 2886 0.1782 0.206 -- 98.0
X Ray Diffraction 3.8399 4.3948 -- 152 2910 0.1509 0.19 -- 98.0
X Ray Diffraction 4.3948 5.534 -- 159 2939 0.1415 0.1791 -- 98.0
X Ray Diffraction 5.534 37.0387 -- 166 2973 0.1999 0.2257 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 0.7272
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.6955
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.4227
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.058
f_dihedral_angle_d 13.56
f_angle_d 0.971
f_bond_d 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6052
Nucleic Acid Atoms 0
Heterogen Atoms 210
Solvent Atoms 643

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
Phaser Structure Solution
PHENIX (phenix.refine: dev_755) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: dev_755) refinement
Phaser model building
HKL-2000 data collection