X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 291.0
Details 0.2M Sodium chloride, 0.1M Na/K phosphate, 7% PEG 8000, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 89.16 α = 90
b = 89.22 β = 90
c = 342.54 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
IMAGE PLATE ADSC QUANTUM 315r -- 2010-03-13
Diffraction Radiation
Monochromator Protocol
SAGITALLY FOCUSED Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.97947 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
2.9 50 91.79 -- -- -- -- -- 57805 -- -- 83.09

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 2.939 39.562 -- 1.33 -- 57763 2922 97.48 -- 0.1872 0.185 0.2279 --
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 2.9389 2.9871 -- 87 1743 0.309 0.4458 -- 66.0
X Ray Diffraction 2.9871 3.0386 -- 115 2604 0.2953 0.3345 -- 98.0
X Ray Diffraction 3.0386 3.0938 -- 131 2624 0.2942 0.3653 -- 99.0
X Ray Diffraction 3.0938 3.1533 -- 122 2627 0.2846 0.3761 -- 99.0
X Ray Diffraction 3.1533 3.2176 -- 144 2626 0.2803 0.3601 -- 99.0
X Ray Diffraction 3.2176 3.2875 -- 116 2634 0.2601 0.318 -- 99.0
X Ray Diffraction 3.2875 3.364 -- 149 2582 0.2579 0.3022 -- 99.0
X Ray Diffraction 3.364 3.4481 -- 169 2671 0.256 0.3234 -- 100.0
X Ray Diffraction 3.4481 3.5412 -- 124 2618 0.2336 0.35 -- 99.0
X Ray Diffraction 3.5412 3.6454 -- 151 2600 0.2153 0.267 -- 99.0
X Ray Diffraction 3.6454 3.7629 -- 165 2644 0.2066 0.2191 -- 99.0
X Ray Diffraction 3.7629 3.8973 -- 155 2620 0.195 0.2219 -- 99.0
X Ray Diffraction 3.8973 4.0532 -- 118 2690 0.1752 0.2447 -- 99.0
X Ray Diffraction 4.0532 4.2375 -- 143 2634 0.1622 0.2075 -- 99.0
X Ray Diffraction 4.2375 4.4606 -- 126 2666 0.1547 0.2151 -- 99.0
X Ray Diffraction 4.4606 4.7397 -- 131 2674 0.1428 0.1855 -- 100.0
X Ray Diffraction 4.7397 5.1049 -- 130 2699 0.1346 0.1605 -- 100.0
X Ray Diffraction 5.1049 5.6173 -- 161 2692 0.1469 0.2188 -- 100.0
X Ray Diffraction 5.6173 6.4272 -- 164 2723 0.1613 0.1986 -- 100.0
X Ray Diffraction 6.4272 8.0862 -- 169 2737 0.1652 0.2085 -- 100.0
X Ray Diffraction 8.0862 39.5658 -- 152 2733 0.1759 0.1812 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 83.4378
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 19.774
f_plane_restr 0.01
f_chiral_restr 0.092
f_angle_d 1.342
f_bond_d 0.011
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11830
Nucleic Acid Atoms 0
Heterogen Atoms 118
Solvent Atoms 23

Software

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