X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 298.0
Details 50 MM TRIS-HCL, 16% PEG350, 180 MM CALCIUM CHLORIDE , pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 80.73 α = 90
b = 118.84 β = 90
c = 127.52 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 95
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 300 mm plate -- 2012-11-23
Diffraction Radiation
Monochromator Protocol
Mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418 -- --

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
2.45 50 99.8 0.079 -- -- -- 45787 45787 0.0 2.5 --
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)
2.45 2.49 97.3 0.523 -- -- -- --

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 2.45 38.485 -- 1.34 45787 45787 2275 99.15 -- 0.1931 0.1917 0.2206 --
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 2.4431 2.4963 -- 115 2369 0.2473 0.2915 -- 87.0
X Ray Diffraction 2.4963 2.5543 -- 135 2686 0.2542 0.3349 -- 99.0
X Ray Diffraction 2.5543 2.6182 -- 160 2679 0.2434 0.2653 -- 100.0
X Ray Diffraction 2.6182 2.689 -- 156 2701 0.2373 0.2791 -- 100.0
X Ray Diffraction 2.689 2.7681 -- 140 2712 0.2379 0.2967 -- 100.0
X Ray Diffraction 2.7681 2.8574 -- 144 2706 0.2303 0.2655 -- 100.0
X Ray Diffraction 2.8574 2.9595 -- 134 2738 0.2261 0.2474 -- 100.0
X Ray Diffraction 2.9595 3.0779 -- 143 2701 0.2237 0.2811 -- 100.0
X Ray Diffraction 3.0779 3.2179 -- 124 2755 0.2188 0.2647 -- 100.0
X Ray Diffraction 3.2179 3.3875 -- 151 2710 0.2111 0.2129 -- 100.0
X Ray Diffraction 3.3875 3.5996 -- 137 2749 0.1948 0.2471 -- 100.0
X Ray Diffraction 3.5996 3.8773 -- 155 2728 0.182 0.2354 -- 100.0
X Ray Diffraction 3.8773 4.267 -- 148 2763 0.1549 0.1651 -- 100.0
X Ray Diffraction 4.267 4.8834 -- 140 2768 0.1376 0.165 -- 100.0
X Ray Diffraction 4.8834 6.1485 -- 165 2790 0.1723 0.1911 -- 100.0
X Ray Diffraction 6.1485 38.4896 -- 128 2957 0.1844 0.1913 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.049
f_dihedral_angle_d 11.267
f_angle_d 0.685
f_bond_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7173
Nucleic Acid Atoms 643
Heterogen Atoms 45
Solvent Atoms 410

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHENIX (phenix.refine: 1.8.1_1168) Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8.1_1168) refinement
PHENIX version: (phenix.refine: 1.8.1_1168) model building
HKL-2000 data collection