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, 10% PEG350, 220 MM CALCIUM CHLORIDE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 295K, pH 7.5, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 80.7 α = 90
b = 119.57 β = 90
c = 127.8 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 -- 2010-04-09
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
2.1 50 99.9 -- -- -- -- 66285 66285 0.0 3.1 --
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)
2.1 2.14 99.8 -- -- -- -- --

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 2.12 27.077 -- 1.34 66285 59378 6358 98.25 -- 0.1801 0.1762 0.2164 --
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 2.1203 2.1444 -- 123 1100 0.2707 0.3084 -- 52.0
X Ray Diffraction 2.1444 2.1696 -- 205 2069 0.2554 0.3068 -- 98.0
X Ray Diffraction 2.1696 2.196 -- 228 2107 0.2384 0.3208 -- 100.0
X Ray Diffraction 2.196 2.2238 -- 232 2107 0.2455 0.2837 -- 100.0
X Ray Diffraction 2.2238 2.2531 -- 244 2075 0.2783 0.3219 -- 100.0
X Ray Diffraction 2.2531 2.2839 -- 218 2090 0.2385 0.2649 -- 100.0
X Ray Diffraction 2.2839 2.3165 -- 214 2116 0.225 0.2729 -- 100.0
X Ray Diffraction 2.3165 2.3511 -- 224 2109 0.2191 0.3316 -- 100.0
X Ray Diffraction 2.3511 2.3878 -- 235 2082 0.2045 0.2564 -- 100.0
X Ray Diffraction 2.3878 2.4269 -- 237 2097 0.1933 0.2972 -- 100.0
X Ray Diffraction 2.4269 2.4687 -- 212 2115 0.1934 0.2347 -- 100.0
X Ray Diffraction 2.4687 2.5136 -- 223 2123 0.1909 0.2285 -- 100.0
X Ray Diffraction 2.5136 2.5619 -- 246 2075 0.1954 0.2585 -- 100.0
X Ray Diffraction 2.5619 2.6142 -- 201 2161 0.1873 0.2603 -- 100.0
X Ray Diffraction 2.6142 2.671 -- 248 2093 0.1898 0.2528 -- 100.0
X Ray Diffraction 2.671 2.733 -- 228 2091 0.19 0.2489 -- 100.0
X Ray Diffraction 2.733 2.8013 -- 225 2144 0.1896 0.2725 -- 100.0
X Ray Diffraction 2.8013 2.877 -- 230 2115 0.193 0.2335 -- 100.0
X Ray Diffraction 2.877 2.9615 -- 229 2098 0.1948 0.2504 -- 100.0
X Ray Diffraction 2.9615 3.057 -- 207 2149 0.1967 0.2281 -- 100.0
X Ray Diffraction 3.057 3.1661 -- 239 2101 0.1966 0.2418 -- 100.0
X Ray Diffraction 3.1661 3.2927 -- 263 2113 0.1909 0.2407 -- 100.0
X Ray Diffraction 3.2927 3.4422 -- 238 2141 0.1748 0.2129 -- 100.0
X Ray Diffraction 3.4422 3.6233 -- 244 2114 0.1693 0.1911 -- 100.0
X Ray Diffraction 3.6233 3.8497 -- 216 2156 0.1611 0.1874 -- 100.0
X Ray Diffraction 3.8497 4.146 -- 221 2158 0.1418 0.1627 -- 100.0
X Ray Diffraction 4.146 4.5614 -- 222 2173 0.131 0.1734 -- 100.0
X Ray Diffraction 4.5614 5.2174 -- 241 2171 0.1284 0.156 -- 100.0
X Ray Diffraction 5.2174 6.5579 -- 221 2222 0.1606 0.1797 -- 100.0
X Ray Diffraction 6.5579 27.0789 -- 235 2294 0.1721 0.1988 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -1.0341
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.8511
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 4.8851
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.056
f_dihedral_angle_d 11.606
f_angle_d 0.815
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7147
Nucleic Acid Atoms 647
Heterogen Atoms 37
Solvent Atoms 664

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHENIX (PHENIX.REFINE: 1.7_650) Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE: 1.7_650) refinement
PHENIX version: (PHENIX.REFINE: 1.7_650) model building