X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 293.0
Details 15% PEG 4000, 0.3M NaCl, and 0.1M sodium citrate, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 117.8 α = 90
b = 117.8 β = 90
c = 318.32 γ = 120
Symmetry
Space Group P 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 270 -- 2003-09-13
Diffraction Radiation
Monochromator Protocol
Si 111 CHANNEL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE F1 0.9186 CHESS F1

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
2.8 50.37 92.533 0.125 -- -- 3.5 121632 112550 0.0 0.0 --
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)
2.8 2.9 68.0 -- -- 0.98 2.7 --

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 3.0 41.5354 -- 0.09 98937 92349 4724 93.3412 -- 0.1994 0.1972 0.2492 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 3.0 3.0478 -- 210 3101 0.294 0.3841 -- 68.0
X Ray Diffraction 3.0478 3.0988 -- 0 3749 0.2855 0.0 -- 81.0
X Ray Diffraction 3.0988 3.1533 -- 142 3714 0.2714 0.388 -- 83.0
X Ray Diffraction 3.1533 3.212 -- 535 3527 0.2539 0.3037 -- 77.0
X Ray Diffraction 3.212 3.2752 -- 0 4192 0.242 0.0 -- 90.0
X Ray Diffraction 3.2752 3.3437 -- 0 4202 0.2395 0.0 -- 93.0
X Ray Diffraction 3.3437 3.4184 -- 690 3500 0.2222 0.2525 -- 77.0
X Ray Diffraction 3.4184 3.5002 -- 0 4347 0.2154 0.0 -- 94.0
X Ray Diffraction 3.5002 3.5905 -- 0 4375 0.2125 0.0 -- 96.0
X Ray Diffraction 3.5905 3.6908 -- 480 3942 0.1995 0.2705 -- 86.0
X Ray Diffraction 3.6908 3.8034 -- 257 4170 0.1998 0.2853 -- 90.0
X Ray Diffraction 3.8034 3.9311 -- 0 4278 0.1905 0.0 -- 94.0
X Ray Diffraction 3.9311 4.0779 -- 62 4287 0.1783 0.2505 -- 94.0
X Ray Diffraction 4.0779 4.2494 -- 652 3695 0.18 0.2305 -- 81.0
X Ray Diffraction 4.2494 4.454 -- 0 4498 0.1541 0.0 -- 98.0
X Ray Diffraction 4.454 4.7047 -- 0 4489 0.1425 0.0 -- 98.0
X Ray Diffraction 4.7047 5.0235 -- 749 3703 0.1555 0.2162 -- 81.0
X Ray Diffraction 5.0235 5.4511 -- 0 4503 0.1775 0.0 -- 98.0
X Ray Diffraction 5.4511 6.0754 -- 0 4531 0.1967 0.0 -- 99.0
X Ray Diffraction 6.0754 7.1422 -- 751 3778 0.2031 0.2361 -- 82.0
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 0.002
f_chiral_restr 0.045
f_dihedral_angle_d 14.29
f_angle_d 0.658
f_bond_d 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 19109
Nucleic Acid Atoms 0
Heterogen Atoms 129
Solvent Atoms 76

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
Phaser Structure Solution
PHENIX (phenix.refine: 1.6.1_357) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6.1_357) refinement
Phaser model building
HKL-2000 data collection