X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 293.0
Details 30% PEG8000, 0.2M LiAc, 0.1M NaAc, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.38 α = 90
b = 130.07 β = 110.68
c = 44.25 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 315r -- 2011-06-22
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.89 SSRF BL17U

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
1.3 27.51 50.5 -- -- -- -- -- 108060 3.0 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)
1.302 1.33 100.0 -- -- -- -- --

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 1.302 27.51 -- 1.35 -- 107811 5266 98.71 0.15 0.1237 0.1218 0.1586 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 1.3015 1.348 -- 459 9651 0.1725 0.223 -- 93.0
X Ray Diffraction 1.348 1.402 -- 507 10375 0.1459 0.1994 -- 100.0
X Ray Diffraction 1.402 1.4658 -- 547 10345 0.1201 0.1788 -- 100.0
X Ray Diffraction 1.4658 1.5431 -- 524 10346 0.1076 0.1628 -- 100.0
X Ray Diffraction 1.5431 1.6397 -- 528 10382 0.0965 0.151 -- 100.0
X Ray Diffraction 1.6397 1.7663 -- 555 10348 0.0984 0.1547 -- 100.0
X Ray Diffraction 1.7663 1.944 -- 558 10318 0.1042 0.1462 -- 100.0
X Ray Diffraction 1.944 2.2252 -- 525 10408 0.1174 0.1479 -- 100.0
X Ray Diffraction 2.2252 2.8031 -- 552 10348 0.1259 0.1596 -- 100.0
X Ray Diffraction 2.8031 27.5197 -- 511 10024 0.1331 0.1536 -- 96.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.9074
Anisotropic B[1][1] 2.3934
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -3.7543
Anisotropic B[2][2] -0.9133
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.4801
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 12.925
f_plane_restr 0.005
f_chiral_restr 0.071
f_angle_d 1.078
f_bond_d 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4207
Nucleic Acid Atoms 0
Heterogen Atoms 28
Solvent Atoms 914

Software

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