X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 25% PEG 3350, 0.1M Bis-Tris, 0.2M Lithium sulfate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 171.61 α = 90
b = 171.61 β = 90
c = 171.61 γ = 90
Symmetry
Space Group I 41 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2010-08-09
Diffraction Radiation
Monochromator Protocol
MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.075 NSLS X29A

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
1.5 38.37 99.27 -- -- -- -- 67964 67964 0.0 0.0 --

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
MOLECULAR REPLACEMENT 1.5 38.373 -- 0.0 67964 67964 3448 99.27 0.2067 0.2067 0.205 0.2382 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 1.5 1.5206 -- 137 2582 0.2907 0.2996 -- 100.0
X Ray Diffraction 1.5206 1.5423 -- 130 2554 0.2915 0.3002 -- 100.0
X Ray Diffraction 1.5423 1.5653 -- 150 2563 0.2917 0.329 -- 100.0
X Ray Diffraction 1.5653 1.5898 -- 131 2570 0.27 0.3306 -- 100.0
X Ray Diffraction 1.5898 1.6159 -- 123 2579 0.2517 0.3014 -- 100.0
X Ray Diffraction 1.6159 1.6437 -- 136 2544 0.2649 0.3031 -- 100.0
X Ray Diffraction 1.6437 1.6736 -- 149 2552 0.2584 0.3241 -- 100.0
X Ray Diffraction 1.6736 1.7058 -- 127 2590 0.2484 0.2601 -- 100.0
X Ray Diffraction 1.7058 1.7406 -- 152 2540 0.2592 0.3133 -- 100.0
X Ray Diffraction 1.7406 1.7785 -- 150 2560 0.2468 0.3215 -- 100.0
X Ray Diffraction 1.7785 1.8199 -- 134 2583 0.2416 0.3246 -- 100.0
X Ray Diffraction 1.8199 1.8654 -- 138 2564 0.2428 0.3101 -- 100.0
X Ray Diffraction 1.8654 1.9158 -- 131 2566 0.2384 0.2652 -- 99.0
X Ray Diffraction 1.9158 1.9722 -- 146 2562 0.2135 0.2181 -- 99.0
X Ray Diffraction 1.9722 2.0358 -- 127 2585 0.2051 0.2393 -- 99.0
X Ray Diffraction 2.0358 2.1086 -- 127 2548 0.2078 0.2479 -- 99.0
X Ray Diffraction 2.1086 2.193 -- 153 2538 0.2127 0.2521 -- 99.0
X Ray Diffraction 2.193 2.2928 -- 144 2559 0.2037 0.2304 -- 98.0
X Ray Diffraction 2.2928 2.4137 -- 156 2514 0.1988 0.2324 -- 98.0
X Ray Diffraction 2.4137 2.5648 -- 136 2575 0.2028 0.2489 -- 98.0
X Ray Diffraction 2.5648 2.7628 -- 119 2578 0.2091 0.2413 -- 98.0
X Ray Diffraction 2.7628 3.0408 -- 141 2593 0.2134 0.247 -- 98.0
X Ray Diffraction 3.0408 3.4805 -- 123 2632 0.1984 0.2157 -- 99.0
X Ray Diffraction 3.4805 4.3841 -- 141 2677 0.1709 0.1845 -- 99.0
X Ray Diffraction 4.3841 38.3857 -- 147 2808 0.1813 0.2249 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.07
f_dihedral_angle_d 11.731
f_angle_d 1.105
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3054
Nucleic Acid Atoms 0
Heterogen Atoms 13
Solvent Atoms 295

Software

Computing
Computing Package Purpose
CBASS Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-3000 Data Reduction (data scaling)
PHENIX Structure Solution
PHENIX (phenix.refine: 1.6.4_486) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6.4_486) refinement
PHENIX model building
CBASS data collection