X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.5
Temperature 281.0
Details 0.1M tri-sodium citrate pH 5.5, 20% PEG 3000, VAPOR DIFFUSION, SITTING DROP, temperature 281K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.94 α = 70.58
b = 62.92 β = 85.7
c = 84.07 γ = 78.96
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.9184 AUSTRALIAN SYNCHROTRON MX2

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
1.6 -- 93.1 -- -- -- -- -- 109375 -- -- 14.12
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)
1.6 1.69 72.9 0.059 -- 2.9 3.4 --

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
MIR 1.6 20.018 -- 1.98 -- 109373 1849 93.1 -- 0.144 0.1435 0.1747 --
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 1.6 1.6432 -- 96 5707 0.2359 0.2578 -- 64.0
X Ray Diffraction 1.6432 1.6915 -- 113 7451 0.188 0.2326 -- 83.0
X Ray Diffraction 1.6915 1.7461 -- 150 8476 0.1635 0.2218 -- 95.0
X Ray Diffraction 1.7461 1.8085 -- 142 8476 0.1552 0.194 -- 95.0
X Ray Diffraction 1.8085 1.8808 -- 154 8519 0.1407 0.1982 -- 96.0
X Ray Diffraction 1.8808 1.9664 -- 147 8510 0.1326 0.1804 -- 96.0
X Ray Diffraction 1.9664 2.0699 -- 149 8525 0.1329 0.1901 -- 96.0
X Ray Diffraction 2.0699 2.1995 -- 146 8593 0.1277 0.1902 -- 97.0
X Ray Diffraction 2.1995 2.369 -- 149 8620 0.1284 0.1473 -- 97.0
X Ray Diffraction 2.369 2.607 -- 146 8659 0.1268 0.1707 -- 97.0
X Ray Diffraction 2.607 2.9832 -- 152 8619 0.1374 0.1585 -- 97.0
X Ray Diffraction 2.9832 3.7544 -- 148 8659 0.1388 0.1777 -- 98.0
X Ray Diffraction 3.7544 20.0191 -- 157 8710 0.1559 0.1534 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 21.4172
Anisotropic B[1][1] 3.7855
Anisotropic B[1][2] 0.1005
Anisotropic B[1][3] 0.5244
Anisotropic B[2][2] -3.9841
Anisotropic B[2][3] -1.3131
Anisotropic B[3][3] 0.1985
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.008
f_chiral_restr 0.112
f_dihedral_angle_d 13.771
f_angle_d 1.596
f_bond_d 0.019
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7163
Nucleic Acid Atoms 0
Heterogen Atoms 117
Solvent Atoms 787

Software

Computing
Computing Package Purpose
blueice Data Collection
XDS Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
SOLVE Structure Solution
PHENIX (phenix.refine: 1.7.1_743) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.1_743) refinement
SOLVE model building
blueice data collection