X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.4
Temperature 298.0
Details 50 MM TRIS HCL, 15% PEG3350, 100MM CALCIUM DIACETATE, 2.5% GLYCEROL, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.83 α = 90
b = 104.49 β = 90
c = 52.53 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2009-10-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-F 1.0 APS 21-ID-F

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
2.95 50 -- 0.124 -- -- -- -- 11170 -- 0.0 --
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)
2.9 3.0 -- 0.565 -- -- -- --

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 2.95 34.91 -- 1.36 -- 11170 1118 98.1 -- 0.2 0.192 0.27 --
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 2.9502 3.0844 -- 125 1123 0.3007 0.4542 -- 90.0
X Ray Diffraction 3.0844 3.2469 -- 133 1203 0.2469 0.3177 -- 96.0
X Ray Diffraction 3.2469 3.4502 -- 139 1252 0.2071 0.3197 -- 100.0
X Ray Diffraction 3.4502 3.7163 -- 141 1258 0.1949 0.2916 -- 100.0
X Ray Diffraction 3.7163 4.0898 -- 141 1270 0.1823 0.2716 -- 100.0
X Ray Diffraction 4.0898 4.6804 -- 142 1289 0.1459 0.223 -- 100.0
X Ray Diffraction 4.6804 5.8922 -- 144 1296 0.1752 0.215 -- 100.0
X Ray Diffraction 5.8922 34.9077 -- 153 1361 0.201 0.2709 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 71.5388
Anisotropic B[1][1] 14.4796
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.7151
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -18.1947
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.3
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2744
Nucleic Acid Atoms 595
Heterogen Atoms 32
Solvent Atoms 44

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
CNS Structure Solution
PHENIX (PHENIX.REFINE: 1.7.2_869) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
phenix refinement