X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7
Temperature 295.0
Details 60%(v/v) Tacsimate, pH 7.0, vapor diffusion, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 148.51 α = 90
b = 150.13 β = 90
c = 176.11 γ = 90
Symmetry
Space Group F 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4r -- 2009-10-27
Diffraction Radiation
Monochromator Protocol
Horizontally Focusing Single Crystal Monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL12B2 1 SPring-8 BL12B2

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
2.6 30 99.5 0.071 -- -- 3.9 -- 33211 1.0 1.0 49.3
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)
2.6 2.69 98.8 0.489 -- 2.5 3.5 10427

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 2.6 30.0 0.0 0.0 -- 28230 1371 93.1 -- -- 0.2064 0.2559 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 2.6 2.63 -- 52 810 0.3129 0.3254 -- --
X Ray Diffraction 2.63 2.67 -- 48 862 0.3157 0.3379 -- --
X Ray Diffraction 2.67 2.7 -- 49 897 0.3133 0.4589 -- --
X Ray Diffraction 2.7 2.74 -- 39 893 0.2951 0.3569 -- --
X Ray Diffraction 2.74 2.78 -- 45 916 0.2705 0.3376 -- --
X Ray Diffraction 2.78 2.83 -- 35 949 0.2565 0.2452 -- --
X Ray Diffraction 2.83 2.87 -- 51 940 0.2527 0.295 -- --
X Ray Diffraction 2.87 2.92 -- 47 949 0.2571 0.3227 -- --
X Ray Diffraction 2.92 2.98 -- 57 931 0.2342 0.2176 -- --
X Ray Diffraction 2.98 3.03 -- 52 970 0.2522 0.3255 -- --
X Ray Diffraction 3.03 3.09 -- 56 964 0.2482 0.2949 -- --
X Ray Diffraction 3.09 3.16 -- 46 993 0.2587 0.3832 -- --
X Ray Diffraction 3.16 3.24 -- 52 997 0.2464 0.3573 -- --
X Ray Diffraction 3.24 3.32 -- 59 1029 0.2363 0.2787 -- --
X Ray Diffraction 3.32 3.41 -- 43 1012 0.2011 0.3031 -- --
X Ray Diffraction 3.41 3.51 -- 58 1024 0.1845 0.2675 -- --
X Ray Diffraction 3.51 3.62 -- 66 1024 0.1671 0.2167 -- --
X Ray Diffraction 3.62 3.75 -- 58 1039 0.176 0.2415 -- --
X Ray Diffraction 3.75 3.9 -- 48 1046 0.18 0.2328 -- --
X Ray Diffraction 3.9 4.07 -- 45 1061 0.1649 0.2019 -- --
X Ray Diffraction 4.07 4.29 -- 51 1088 0.1601 0.2116 -- --
X Ray Diffraction 4.29 4.56 -- 60 1050 0.142 0.1948 -- --
X Ray Diffraction 4.56 4.91 -- 41 1075 0.1581 0.1911 -- --
X Ray Diffraction 4.91 5.4 -- 61 1069 0.1863 0.2235 -- --
X Ray Diffraction 5.4 6.17 -- 57 1065 0.2455 0.3457 -- --
X Ray Diffraction 6.17 7.76 -- 49 1101 0.2218 0.2691 -- --
X Ray Diffraction 7.76 30.0 -- 46 1105 0.2052 0.1843 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 48.9747
Anisotropic B[1][1] 11.271
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -11.27
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.001
RMS Deviations
Key Refinement Restraint Deviation
c_scbond_it 2.165
c_mcbond_it 1.474
c_mcangle_it 2.591
c_scangle_it 3.426
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4586
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 373

Software

Software
Software Name Purpose
MOLREP phasing
CNS refinement
PDB_EXTRACT data extraction version: 3.10
HKL-2000 data collection
DENZO data reduction
SCALEPACK data scaling
HKL-2000 data scaling