X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 292.0
Details 20% PEG 3,350, 0.2M Lithium Citrate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 75.57 α = 90
b = 79.68 β = 90
c = 162.65 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2010-01-01
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A 1.2820 NSLS X29A

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
2.5 30 99.9 -- 0.132 -- 14.0 34630 34594 -- -3.0 --
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)
2.5 2.59 100.0 -- 0.512 5.6 13.9 3391

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 2.5 29.879 -- 0.0 34630 33580 1700 96.84 -- 0.1991 0.196 0.2562 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 2.5 2.5905 -- 160 2887 0.2469 0.329 -- 89.0
X Ray Diffraction 2.5905 2.6942 -- 175 3013 0.2473 0.3349 -- 94.0
X Ray Diffraction 2.6942 2.8167 -- 145 3137 0.2293 0.3006 -- 95.0
X Ray Diffraction 2.8167 2.9651 -- 145 3153 0.2184 0.3326 -- 96.0
X Ray Diffraction 2.9651 3.1507 -- 194 3176 0.2238 0.2652 -- 98.0
X Ray Diffraction 3.1507 3.3936 -- 179 3182 0.2041 0.2822 -- 98.0
X Ray Diffraction 3.3936 3.7345 -- 166 3259 0.2027 0.2585 -- 99.0
X Ray Diffraction 3.7345 4.2736 -- 163 3297 0.1667 0.2509 -- 99.0
X Ray Diffraction 4.2736 5.3792 -- 189 3303 0.1548 0.1801 -- 99.0
X Ray Diffraction 5.3792 29.8812 -- 184 3473 0.1937 0.2365 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -3.9256
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 12.1362
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -8.2106
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.061
f_dihedral_angle_d 15.636
f_angle_d 0.951
f_bond_d 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6472
Nucleic Acid Atoms 0
Heterogen Atoms 28
Solvent Atoms 327

Software

Computing
Computing Package Purpose
CBASS Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.6.4_486) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6.4_486) refinement
PHASER model building
CBASS data collection