X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 291.0
Details 0.2M (NH4)2 Tartrate, 0.1M HEPES, 10% PEG20000, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 101.84 α = 94.47
b = 108.93 β = 112.34
c = 120.82 γ = 117.95
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE ADSC QUANTUM 315r -- 2012-03-26
Diffraction Radiation
Monochromator Protocol
SAGITALLY FOCUSED Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.97930 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
3.1 50 94.23 -- -- -- -- 71966 68642 -- -- 66.84

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 3.103 45.059 -- 0.11 71966 68642 3457 94.23 -- 0.2048 0.204 0.2211 --
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 3.1033 3.1458 -- 114 2076 0.3036 0.3163 -- 76.0
X Ray Diffraction 3.1458 3.1907 -- 115 2405 0.2913 0.2923 -- 85.0
X Ray Diffraction 3.1907 3.2384 -- 106 2397 0.2987 0.3123 -- 87.0
X Ray Diffraction 3.2384 3.289 -- 146 2484 0.2847 0.3361 -- 89.0
X Ray Diffraction 3.289 3.3429 -- 127 2422 0.2643 0.2682 -- 89.0
X Ray Diffraction 3.3429 3.4005 -- 126 2578 0.268 0.2801 -- 91.0
X Ray Diffraction 3.4005 3.4623 -- 133 2447 0.263 0.3216 -- 90.0
X Ray Diffraction 3.4623 3.5289 -- 129 2603 0.2472 0.2759 -- 93.0
X Ray Diffraction 3.5289 3.6009 -- 147 2560 0.2343 0.2577 -- 94.0
X Ray Diffraction 3.6009 3.6791 -- 126 2627 0.2227 0.2587 -- 95.0
X Ray Diffraction 3.6791 3.7647 -- 157 2703 0.209 0.2691 -- 96.0
X Ray Diffraction 3.7647 3.8588 -- 153 2596 0.1988 0.219 -- 96.0
X Ray Diffraction 3.8588 3.963 -- 123 2698 0.2103 0.2391 -- 96.0
X Ray Diffraction 3.963 4.0796 -- 136 2673 0.1886 0.2133 -- 97.0
X Ray Diffraction 4.0796 4.2112 -- 148 2704 0.1834 0.2045 -- 97.0
X Ray Diffraction 4.2112 4.3616 -- 130 2690 0.1647 0.1686 -- 97.0
X Ray Diffraction 4.3616 4.536 -- 158 2712 0.1693 0.1432 -- 98.0
X Ray Diffraction 4.536 4.7423 -- 145 2724 0.1664 0.195 -- 98.0
X Ray Diffraction 4.7423 4.992 -- 141 2697 0.1623 0.2135 -- 99.0
X Ray Diffraction 4.992 5.3043 -- 161 2685 0.1695 0.1875 -- 98.0
X Ray Diffraction 5.3043 5.7131 -- 156 2743 0.1733 0.1759 -- 99.0
X Ray Diffraction 5.7131 6.2867 -- 148 2711 0.1849 0.2001 -- 99.0
X Ray Diffraction 6.2867 7.1932 -- 147 2759 0.1701 0.192 -- 99.0
X Ray Diffraction 7.1932 9.0506 -- 152 2746 0.1548 0.1603 -- 100.0
X Ray Diffraction 9.0506 45.0639 -- 133 2745 0.1709 0.161 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 77.403
Anisotropic B[1][1] -15.707
Anisotropic B[1][2] 2.4864
Anisotropic B[1][3] -1.909
Anisotropic B[2][2] -6.8076
Anisotropic B[2][3] -5.9519
Anisotropic B[3][3] 22.5147
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 15.099
f_plane_restr 0.01
f_chiral_restr 0.051
f_angle_d 0.798
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 23876
Nucleic Acid Atoms 0
Heterogen Atoms 224
Solvent Atoms 56

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: 1.6.1_353) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6.1_353) refinement
PHASER model building
HKL-2000 data collection