X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 277.15
Details 15% PEG 8000, 20mM sodium phosphate, 175mM sodium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.8 α = 90
b = 71.5 β = 99.9
c = 71.9 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX-225 COLLIMATING MIRROR 2009-12-11
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.2 0.91841 BESSY 14.2

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
1.23 50 97.9 -- 0.047 -- 2.8 99085 99085 -- -- 10.66
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)
1.23 1.25 91.7 -- 0.387 2.0 2.1 4675

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 1.23 20.109 -- 0.0 97223 92538 4685 91.87 0.1415 0.1415 0.1404 0.1629 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 1.23 1.274 -- 443 7640 0.2082 0.2257 -- 81.0
X Ray Diffraction 1.274 1.325 -- 440 8007 0.1761 0.1901 -- 84.0
X Ray Diffraction 1.325 1.3853 -- 441 8403 0.1479 0.1862 -- 88.0
X Ray Diffraction 1.3853 1.4583 -- 475 8682 0.1333 0.1614 -- 91.0
X Ray Diffraction 1.4583 1.5496 -- 461 8942 0.1106 0.1544 -- 94.0
X Ray Diffraction 1.5496 1.6692 -- 490 9196 0.1012 0.1211 -- 96.0
X Ray Diffraction 1.6692 1.8371 -- 476 9316 0.1092 0.137 -- 97.0
X Ray Diffraction 1.8371 2.1027 -- 486 9382 0.1248 0.1476 -- 98.0
X Ray Diffraction 2.1027 2.6482 -- 474 9441 0.1441 0.1613 -- 98.0
X Ray Diffraction 2.6482 20.1122 -- 499 8844 0.1577 0.1754 -- 91.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.7196
Anisotropic B[1][1] 1.076
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -2.9764
Anisotropic B[2][2] -0.2042
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.8719
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 16.963
f_plane_restr 0.005
f_chiral_restr 0.078
f_angle_d 1.111
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2337
Nucleic Acid Atoms 0
Heterogen Atoms 72
Solvent Atoms 390

Software

Computing
Computing Package Purpose
MAR345dtb 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
MAR345dtb data collection