X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.41 α = 90
b = 129.49 β = 111.11
c = 44.76 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 180
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2012-04-26
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-17A 1 PHOTON FACTORY BL-17A

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
1.29 20 55.3 -- -- -- -- -- 124835 3.0 3.0 11.42

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
SAD 1.29 19.87 -- 0.0 -- 93530 4727 83.01 0.15 0.1246 0.1228 0.1579 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 1.29 1.3361 -- 440 8073 0.2185 0.265 -- 76.0
X Ray Diffraction 1.3361 1.3896 -- 419 8144 0.1853 0.2447 -- 77.0
X Ray Diffraction 1.3896 1.4528 -- 425 8309 0.1439 0.2174 -- 77.0
X Ray Diffraction 1.4528 1.5294 -- 473 8468 0.1126 0.1784 -- 80.0
X Ray Diffraction 1.5294 1.6252 -- 500 8521 0.1008 0.1581 -- 80.0
X Ray Diffraction 1.6252 1.7506 -- 419 8614 0.0976 0.1429 -- 80.0
X Ray Diffraction 1.7506 1.9266 -- 484 8596 0.103 0.1456 -- 81.0
X Ray Diffraction 1.9266 2.2051 -- 489 9429 0.112 0.1434 -- 88.0
X Ray Diffraction 2.2051 2.777 -- 556 10275 0.1217 0.1514 -- 96.0
X Ray Diffraction 2.777 19.872 -- 522 10374 0.1259 0.1475 -- 96.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.9681
Anisotropic B[1][1] 1.2813
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.2702
Anisotropic B[2][2] 0.5155
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.7968
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 12.386
f_plane_restr 0.005
f_chiral_restr 0.073
f_angle_d 1.064
f_bond_d 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4216
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 903

Software

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