X-RAY DIFFRACTION Experimental Data & Validation

X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 298.0
Details 50 MM TRIS-HCL, 13% PEG350, 180 MM CALCIUM CHLORIDE, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 80.98 α = 90
b = 119.35 β = 90
c = 127.86 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 -- 2010-05-12
Diffraction Radiation
Monochromator Protocol
MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF -- -- --

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
2.05 50 97.9 0.089 -- -- -- 64642 64642 0.0 2.6 --
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)
2.05 2.12 84.0 0.503 -- -- -- --

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 2.05 21.62 -- 0.0 64642 64642 3199 82.8 -- 0.209 0.207 0.247 --
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 2.052 2.0825 -- 107 2181 0.2865 0.4009 -- 69.0
X Ray Diffraction 2.0825 2.115 -- 135 2448 0.2747 0.3562 -- 77.0
X Ray Diffraction 2.115 2.1497 -- 140 2636 0.258 0.3098 -- 83.0
X Ray Diffraction 2.1497 2.1867 -- 126 2799 0.2321 0.3072 -- 86.0
X Ray Diffraction 2.1867 2.2265 -- 133 2756 0.219 0.2454 -- 87.0
X Ray Diffraction 2.2265 2.2692 -- 140 2753 0.2269 0.3393 -- 86.0
X Ray Diffraction 2.2692 2.3155 -- 123 2434 0.258 0.2891 -- 76.0
X Ray Diffraction 2.3155 2.3658 -- 136 2475 0.2578 0.3713 -- 78.0
X Ray Diffraction 2.3658 2.4207 -- 119 2319 0.2542 0.3058 -- 73.0
X Ray Diffraction 2.4207 2.4812 -- 127 2297 0.275 0.3496 -- 72.0
X Ray Diffraction 2.4812 2.5482 -- 113 2357 0.2627 0.2977 -- 73.0
X Ray Diffraction 2.5482 2.623 -- 140 2345 0.2767 0.3105 -- 74.0
X Ray Diffraction 2.623 2.7076 -- 141 2353 0.258 0.303 -- 74.0
X Ray Diffraction 2.7076 2.8041 -- 123 2344 0.2745 0.2987 -- 73.0
X Ray Diffraction 2.8041 2.9161 -- 120 2435 0.2567 0.2829 -- 75.0
X Ray Diffraction 2.9161 3.0485 -- 128 2537 0.2347 0.2731 -- 79.0
X Ray Diffraction 3.0485 3.2088 -- 136 2855 0.2196 0.2841 -- 88.0
X Ray Diffraction 3.2088 3.4091 -- 170 3133 0.206 0.217 -- 97.0
X Ray Diffraction 3.4091 3.6711 -- 169 3233 0.1981 0.2257 -- 99.0
X Ray Diffraction 3.6711 4.0384 -- 158 3110 0.1687 0.2051 -- 95.0
X Ray Diffraction 4.0384 4.6178 -- 176 3038 0.135 0.1769 -- 93.0
X Ray Diffraction 4.6178 5.7993 -- 180 3189 0.1467 0.1807 -- 96.0
X Ray Diffraction 5.7993 21.622 -- 159 3416 0.2138 0.252 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -0.4673
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -5.0015
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 5.4688
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.209
f_plane_restr 0.005
f_bond_d 0.013
f_dihedral_angle_d 12.897
f_chiral_restr 0.074
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7217
Nucleic Acid Atoms 651
Heterogen Atoms 36
Solvent Atoms 553

Software

Software
Software Name Purpose
PHENIX model building version: (PHENIX.REFINE: 1.7_650)
PHENIX refinement version: (PHENIX.REFINE: 1.7_650)
HKL-2000 data reduction
HKL-2000 data scaling
PHENIX phasing version: 1.7_650