X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 293.0
Details 0.2 M ammonium phosphate dibasic, 20% PEG3350, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 49.61 α = 90
b = 116.43 β = 90
c = 185.4 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 ADSC QUANTUM 210 -- 2012-03-03
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE A1 0.987 CHESS A1

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
2.09 50 98.9 -- 0.081 -- 8.0 64491 63782 1.0 1.0 --
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)
2.091 2.18 96.8 -- 0.474 4.1 6.5 --

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 2.091 43.74 -- 1.3 64491 61511 1927 95.25 -- 0.2004 0.1988 0.2493 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 2.091 2.1431 -- 133 4079 0.2382 0.2912 -- 93.0
X Ray Diffraction 2.1431 2.201 -- 129 3986 0.3314 0.3657 -- 91.0
X Ray Diffraction 2.201 2.2658 -- 116 3598 0.4227 0.5286 -- 83.0
X Ray Diffraction 2.2658 2.3389 -- 103 3300 0.3898 0.5284 -- 75.0
X Ray Diffraction 2.3389 2.4225 -- 141 4333 0.2103 0.261 -- 98.0
X Ray Diffraction 2.4225 2.5195 -- 143 4383 0.1943 0.2509 -- 99.0
X Ray Diffraction 2.5195 2.6341 -- 143 4404 0.1953 0.2309 -- 99.0
X Ray Diffraction 2.6341 2.773 -- 143 4420 0.202 0.2794 -- 100.0
X Ray Diffraction 2.773 2.9467 -- 143 4441 0.1991 0.2581 -- 100.0
X Ray Diffraction 2.9467 3.1741 -- 143 4425 0.1934 0.2457 -- 100.0
X Ray Diffraction 3.1741 3.4934 -- 144 4492 0.1818 0.2314 -- 100.0
X Ray Diffraction 3.4934 3.9986 -- 145 4412 0.166 0.1888 -- 98.0
X Ray Diffraction 3.9986 5.0367 -- 148 4569 0.1317 0.1782 -- 100.0
X Ray Diffraction 5.0367 43.7497 -- 153 4742 0.1602 0.191 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.081
f_dihedral_angle_d 15.914
f_angle_d 1.229
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6704
Nucleic Acid Atoms 0
Heterogen Atoms 68
Solvent Atoms 661

Software

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